-- dump date 20120504_162824 -- class Genbank::misc_feature -- table misc_feature_note -- id note 171101000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 171101000002 DNA polymerase III subunit beta; Validated; Region: PRK05643 171101000003 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 171101000004 putative DNA binding surface [nucleotide binding]; other site 171101000005 dimer interface [polypeptide binding]; other site 171101000006 beta-clamp/clamp loader binding surface; other site 171101000007 beta-clamp/translesion DNA polymerase binding surface; other site 171101000008 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 171101000009 GTP-binding protein YchF; Reviewed; Region: PRK09601 171101000010 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 171101000011 G1 box; other site 171101000012 GTP/Mg2+ binding site [chemical binding]; other site 171101000013 Switch I region; other site 171101000014 G2 box; other site 171101000015 Switch II region; other site 171101000016 G3 box; other site 171101000017 G4 box; other site 171101000018 G5 box; other site 171101000019 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 171101000020 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 171101000021 putative active site [active] 171101000022 catalytic residue [active] 171101000023 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 171101000024 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 171101000025 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 171101000026 ATP binding site [chemical binding]; other site 171101000027 putative Mg++ binding site [ion binding]; other site 171101000028 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 171101000029 nucleotide binding region [chemical binding]; other site 171101000030 ATP-binding site [chemical binding]; other site 171101000031 TRCF domain; Region: TRCF; cl04088 171101000032 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 171101000033 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 171101000034 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 171101000035 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 171101000036 Ligand Binding Site [chemical binding]; other site 171101000037 B3/4 domain; Region: B3_4; cl11458 171101000038 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101000039 FtsH Extracellular; Region: FtsH_ext; pfam06480 171101000040 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 171101000041 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 171101000042 Walker A motif; other site 171101000043 ATP binding site [chemical binding]; other site 171101000044 Walker B motif; other site 171101000045 arginine finger; other site 171101000046 Peptidase family M41; Region: Peptidase_M41; pfam01434 171101000047 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 171101000048 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101000049 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 171101000050 Integrase core domain; Region: rve; cl01316 171101000051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101000052 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 171101000053 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 171101000054 GDP-binding site [chemical binding]; other site 171101000055 ACT binding site; other site 171101000056 IMP binding site; other site 171101000057 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 171101000058 nucleoside/Zn binding site; other site 171101000059 dimer interface [polypeptide binding]; other site 171101000060 catalytic motif [active] 171101000061 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 171101000062 trimer interface [polypeptide binding]; other site 171101000063 active site 171101000064 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 171101000065 catalytic core [active] 171101000066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101000067 DNA repair protein RadA; Provisional; Region: PRK11823 171101000068 Walker A motif; other site 171101000069 ATP binding site [chemical binding]; other site 171101000070 Walker B motif; other site 171101000071 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 171101000072 active site clefts [active] 171101000073 zinc binding site [ion binding]; other site 171101000074 dimer interface [polypeptide binding]; other site 171101000075 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 171101000076 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 171101000077 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101000078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101000079 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 171101000080 DNA polymerase I; Provisional; Region: PRK05755 171101000081 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 171101000082 active site 171101000083 metal binding site 1 [ion binding]; metal-binding site 171101000084 putative 5' ssDNA interaction site; other site 171101000085 metal binding site 3; metal-binding site 171101000086 metal binding site 2 [ion binding]; metal-binding site 171101000087 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 171101000088 putative DNA binding site [nucleotide binding]; other site 171101000089 putative metal binding site [ion binding]; other site 171101000090 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 171101000091 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 171101000092 active site 171101000093 DNA binding site [nucleotide binding] 171101000094 catalytic site [active] 171101000095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000096 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 171101000097 aromatic amino acid aminotransferase; Validated; Region: PRK07309 171101000098 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 171101000099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101000100 homodimer interface [polypeptide binding]; other site 171101000101 catalytic residue [active] 171101000102 Recombination protein O N terminal; Region: RecO_N; pfam11967 171101000103 DNA repair protein RecO; Region: reco; TIGR00613 171101000104 Recombination protein O C terminal; Region: RecO_C; pfam02565 171101000105 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 171101000106 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101000107 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 171101000108 Transposase; Region: DDE_Tnp_ISL3; pfam01610 171101000109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101000110 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 bacteriocins; Region: Peptidase_C39B; cd02418 171101000111 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 171101000112 putative active site [active] 171101000113 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101000114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101000115 Walker A/P-loop; other site 171101000116 ATP binding site [chemical binding]; other site 171101000117 Q-loop/lid; other site 171101000118 ABC transporter signature motif; other site 171101000119 Walker B; other site 171101000120 D-loop; other site 171101000121 H-loop/switch region; other site 171101000122 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 171101000123 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 171101000124 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 171101000125 ATP binding site [chemical binding]; other site 171101000126 active site 171101000127 substrate binding site [chemical binding]; other site 171101000128 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 171101000129 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 171101000130 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 171101000131 dimerization interface [polypeptide binding]; other site 171101000132 ATP binding site [chemical binding]; other site 171101000133 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 171101000134 dimerization interface [polypeptide binding]; other site 171101000135 ATP binding site [chemical binding]; other site 171101000136 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 171101000137 putative active site [active] 171101000138 catalytic triad [active] 171101000139 amidophosphoribosyltransferase; Provisional; Region: PRK07272 171101000140 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 171101000141 active site 171101000142 tetramer interface [polypeptide binding]; other site 171101000143 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101000144 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101000145 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 171101000146 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 171101000147 dimerization interface [polypeptide binding]; other site 171101000148 putative ATP binding site [chemical binding]; other site 171101000149 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 171101000150 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 171101000151 active site 171101000152 substrate binding site [chemical binding]; other site 171101000153 cosubstrate binding site; other site 171101000154 catalytic site [active] 171101000155 VanZ like family; Region: VanZ; cl01971 171101000156 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 171101000157 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 171101000158 purine monophosphate binding site [chemical binding]; other site 171101000159 dimer interface [polypeptide binding]; other site 171101000160 putative catalytic residues [active] 171101000161 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 171101000162 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 171101000163 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 171101000164 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 171101000165 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 171101000166 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 171101000167 AIR carboxylase; Region: AIRC; cl00310 171101000168 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 171101000169 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 171101000170 adenylosuccinate lyase; Provisional; Region: PRK07492 171101000171 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 171101000172 tetramer interface [polypeptide binding]; other site 171101000173 active site 171101000174 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101000175 cell division protein DedD; Provisional; Region: PRK11633 171101000176 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 171101000177 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 171101000178 active site 171101000179 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 171101000180 active site 171101000181 G5 domain; Region: G5; pfam07501 171101000182 G5 domain; Region: G5; pfam07501 171101000183 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_long; TIGR01348 171101000184 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 171101000185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101000186 DNA-binding site [nucleotide binding]; DNA binding site 171101000187 UTRA domain; Region: UTRA; cl01230 171101000188 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 171101000189 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 171101000190 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 171101000191 active site 171101000192 phosphorylation site [posttranslational modification] 171101000193 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 171101000194 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 171101000195 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 171101000196 active pocket/dimerization site; other site 171101000197 active site 171101000198 phosphorylation site [posttranslational modification] 171101000199 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 171101000200 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 171101000201 dimer interface [polypeptide binding]; other site 171101000202 active site 171101000203 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 171101000204 putative active site [active] 171101000205 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 171101000206 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 171101000207 active site 171101000208 catalytic residues [active] 171101000209 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 171101000210 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 171101000211 putative metal binding site [ion binding]; other site 171101000212 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 171101000213 active site 171101000214 metal binding site [ion binding]; metal-binding site 171101000215 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 171101000216 putative homotetramer interface [polypeptide binding]; other site 171101000217 putative homodimer interface [polypeptide binding]; other site 171101000218 putative metal binding site [ion binding]; other site 171101000219 putative homodimer-homodimer interface [polypeptide binding]; other site 171101000220 putative allosteric switch controlling residues; other site 171101000221 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 171101000222 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 171101000223 Cation transport protein; Region: TrkH; cl10514 171101000224 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 171101000225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000226 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 171101000227 active site 171101000228 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000229 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000230 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000231 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000232 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000233 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000234 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101000235 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 171101000236 active site 171101000237 phosphorylation site [posttranslational modification] 171101000238 intermolecular recognition site; other site 171101000239 dimerization interface [polypeptide binding]; other site 171101000240 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 171101000241 DNA binding site [nucleotide binding] 171101000242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101000243 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 171101000244 dimerization interface [polypeptide binding]; other site 171101000245 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 171101000246 dimer interface [polypeptide binding]; other site 171101000247 phosphorylation site [posttranslational modification] 171101000248 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 171101000249 ATP binding site [chemical binding]; other site 171101000250 Mg2+ binding site [ion binding]; other site 171101000251 G-X-G motif; other site 171101000252 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 171101000253 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 171101000254 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 171101000255 RNA binding surface [nucleotide binding]; other site 171101000256 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101000257 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 171101000258 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 171101000259 dimer interface [polypeptide binding]; other site 171101000260 conserved gate region; other site 171101000261 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 171101000262 ABC-ATPase subunit interface; other site 171101000263 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101000264 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 171101000265 dimer interface [polypeptide binding]; other site 171101000266 conserved gate region; other site 171101000267 putative PBP binding loops; other site 171101000268 ABC-ATPase subunit interface; other site 171101000269 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101000270 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 171101000271 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 171101000272 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 171101000273 active site residue [active] 171101000274 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 171101000275 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 171101000276 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 171101000277 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 171101000278 Helix-turn-helix domains; Region: HTH; cl00088 171101000279 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 171101000280 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 171101000281 putative substrate translocation pore; other site 171101000282 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 171101000283 Ligand binding site; other site 171101000284 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 171101000285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000286 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 171101000287 NAD(P) binding site [chemical binding]; other site 171101000288 homodimer interface [polypeptide binding]; other site 171101000289 substrate binding site [chemical binding]; other site 171101000290 active site 171101000291 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 171101000292 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 171101000293 active site 171101000294 motif I; other site 171101000295 motif II; other site 171101000296 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 171101000297 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 171101000298 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 171101000299 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 171101000300 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 171101000301 putative L-serine binding site [chemical binding]; other site 171101000302 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 171101000303 putative peptidoglycan binding site; other site 171101000304 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 171101000305 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 171101000306 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101000307 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101000308 Walker A/P-loop; other site 171101000309 ATP binding site [chemical binding]; other site 171101000310 Q-loop/lid; other site 171101000311 ABC transporter signature motif; other site 171101000312 Walker B; other site 171101000313 D-loop; other site 171101000314 H-loop/switch region; other site 171101000315 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 171101000316 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101000317 substrate binding pocket [chemical binding]; other site 171101000318 membrane-bound complex binding site; other site 171101000319 hinge residues; other site 171101000320 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 171101000321 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 171101000322 ANP binding site [chemical binding]; other site 171101000323 Substrate Binding Site II [chemical binding]; other site 171101000324 Substrate Binding Site I [chemical binding]; other site 171101000325 argininosuccinate lyase; Provisional; Region: PRK00855 171101000326 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 171101000327 active sites [active] 171101000328 tetramer interface [polypeptide binding]; other site 171101000329 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 171101000330 non-specific DNA binding site [nucleotide binding]; other site 171101000331 salt bridge; other site 171101000332 sequence-specific DNA binding site [nucleotide binding]; other site 171101000333 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 171101000334 putative active site [active] 171101000335 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 171101000336 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101000337 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101000338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101000339 Walker A/P-loop; other site 171101000340 ATP binding site [chemical binding]; other site 171101000341 Q-loop/lid; other site 171101000342 ABC transporter signature motif; other site 171101000343 Walker B; other site 171101000344 D-loop; other site 171101000345 H-loop/switch region; other site 171101000346 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 171101000347 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 171101000348 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 171101000349 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000350 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000351 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000352 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000353 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000354 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000355 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 171101000356 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000357 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000358 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 171101000359 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 171101000360 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 171101000361 nudix motif; other site 171101000362 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 171101000363 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 171101000364 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 171101000365 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 171101000366 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101000367 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 171101000368 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 171101000369 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 171101000370 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 171101000371 Glycoprotease family; Region: Peptidase_M22; pfam00814 171101000372 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 171101000373 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101000374 UGMP family protein; Validated; Region: PRK09604 171101000375 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 171101000376 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 171101000377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101000378 Transposase; Region: DDE_Tnp_ISL3; pfam01610 171101000379 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101000380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 171101000381 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 171101000382 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 171101000383 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 171101000384 active site 171101000385 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 171101000386 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101000387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101000388 Walker A/P-loop; other site 171101000389 ATP binding site [chemical binding]; other site 171101000390 Q-loop/lid; other site 171101000391 ABC transporter signature motif; other site 171101000392 Walker B; other site 171101000393 D-loop; other site 171101000394 H-loop/switch region; other site 171101000395 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 171101000396 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 171101000397 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 171101000398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000399 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 171101000400 non-specific DNA binding site [nucleotide binding]; other site 171101000401 salt bridge; other site 171101000402 sequence-specific DNA binding site [nucleotide binding]; other site 171101000403 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101000404 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101000405 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101000406 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101000407 AzlC protein; Region: AzlC; cl00570 171101000408 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101000409 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 171101000410 substrate binding pocket [chemical binding]; other site 171101000411 membrane-bound complex binding site; other site 171101000412 hinge residues; other site 171101000413 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 171101000414 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 171101000415 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 171101000416 metal binding site [ion binding]; metal-binding site 171101000417 dimer interface [polypeptide binding]; other site 171101000418 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 171101000419 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 171101000420 Walker A/P-loop; other site 171101000421 ATP binding site [chemical binding]; other site 171101000422 Q-loop/lid; other site 171101000423 ABC transporter signature motif; other site 171101000424 Walker B; other site 171101000425 D-loop; other site 171101000426 H-loop/switch region; other site 171101000427 NIL domain; Region: NIL; cl09633 171101000428 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 171101000429 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 171101000430 Protein of unknown function, DUF624; Region: DUF624; cl02369 171101000431 Histidine kinase; Region: His_kinase; pfam06580 171101000432 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 171101000433 ATP binding site [chemical binding]; other site 171101000434 Mg2+ binding site [ion binding]; other site 171101000435 G-X-G motif; other site 171101000436 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 171101000437 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 171101000438 active site 171101000439 phosphorylation site [posttranslational modification] 171101000440 intermolecular recognition site; other site 171101000441 dimerization interface [polypeptide binding]; other site 171101000442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101000443 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 171101000444 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 171101000445 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 171101000446 LytTr DNA-binding domain; Region: LytTR; cl04498 171101000447 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 171101000448 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 171101000449 ATP binding site [chemical binding]; other site 171101000450 Mg2+ binding site [ion binding]; other site 171101000451 G-X-G motif; other site 171101000452 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 171101000453 ATP binding site [chemical binding]; other site 171101000454 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 171101000455 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 171101000456 homopentamer interface [polypeptide binding]; other site 171101000457 active site 171101000458 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 171101000459 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 171101000460 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 171101000461 dimerization interface [polypeptide binding]; other site 171101000462 active site 171101000463 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 171101000464 Lumazine binding domain; Region: Lum_binding; pfam00677 171101000465 Lumazine binding domain; Region: Lum_binding; pfam00677 171101000466 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 171101000467 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 171101000468 catalytic motif [active] 171101000469 Zn binding site [ion binding]; other site 171101000470 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; cl00161 171101000471 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 171101000472 RuvA N terminal domain; Region: RuvA_N; pfam01330 171101000473 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 171101000474 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101000475 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 171101000476 putative dimer interface [polypeptide binding]; other site 171101000477 catalytic triad [active] 171101000478 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 171101000479 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 171101000480 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 171101000481 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 171101000482 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 171101000483 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 171101000484 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 171101000485 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 171101000486 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 171101000487 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 171101000488 active site 171101000489 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 171101000490 ArsC family; Region: ArsC; pfam03960 171101000491 putative catalytic residues [active] 171101000492 thiol/disulfide switch; other site 171101000493 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 171101000494 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 171101000495 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 171101000496 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 171101000497 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 171101000498 Bacterial lipoprotein; Region: DUF3642; pfam12182 171101000499 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 171101000500 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 171101000501 putative active site [active] 171101000502 catalytic site [active] 171101000503 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 171101000504 putative active site [active] 171101000505 catalytic site [active] 171101000506 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 171101000507 ATP cone domain; Region: ATP-cone; pfam03477 171101000508 Class III ribonucleotide reductase; Region: RNR_III; cd01675 171101000509 effector binding site; other site 171101000510 active site 171101000511 Zn binding site [ion binding]; other site 171101000512 glycine loop; other site 171101000513 Predicted acetyltransferase [General function prediction only]; Region: COG3981 171101000514 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101000515 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 171101000516 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 171101000517 FeS/SAM binding site; other site 171101000518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101000519 active site 171101000520 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 171101000521 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 171101000522 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 171101000523 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 171101000524 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 171101000525 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 171101000526 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 171101000527 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 171101000528 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 171101000529 putative translocon binding site; other site 171101000530 protein-rRNA interface [nucleotide binding]; other site 171101000531 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 171101000532 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 171101000533 G-X-X-G motif; other site 171101000534 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 171101000535 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 171101000536 23S rRNA interface [nucleotide binding]; other site 171101000537 5S rRNA interface [nucleotide binding]; other site 171101000538 putative antibiotic binding site [chemical binding]; other site 171101000539 L25 interface [polypeptide binding]; other site 171101000540 L27 interface [polypeptide binding]; other site 171101000541 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 171101000542 23S rRNA interface [nucleotide binding]; other site 171101000543 putative translocon interaction site; other site 171101000544 signal recognition particle (SRP54) interaction site; other site 171101000545 L23 interface [polypeptide binding]; other site 171101000546 trigger factor interaction site; other site 171101000547 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 171101000548 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 171101000549 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 171101000550 KOW motif; Region: KOW; cl00354 171101000551 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 171101000552 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 171101000553 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 171101000554 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 171101000555 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 171101000556 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 171101000557 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 171101000558 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 171101000559 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 171101000560 5S rRNA interface [nucleotide binding]; other site 171101000561 L27 interface [polypeptide binding]; other site 171101000562 23S rRNA interface [nucleotide binding]; other site 171101000563 L5 interface [polypeptide binding]; other site 171101000564 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 171101000565 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 171101000566 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 171101000567 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 171101000568 23S rRNA binding site [nucleotide binding]; other site 171101000569 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 171101000570 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 171101000571 SecY translocase; Region: SecY; pfam00344 171101000572 adenylate kinase; Reviewed; Region: adk; PRK00279 171101000573 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 171101000574 AMP-binding site [chemical binding]; other site 171101000575 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 171101000576 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 171101000577 rRNA binding site [nucleotide binding]; other site 171101000578 predicted 30S ribosome binding site; other site 171101000579 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 171101000580 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 171101000581 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 171101000582 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 171101000583 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 171101000584 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 171101000585 alphaNTD homodimer interface [polypeptide binding]; other site 171101000586 alphaNTD - beta interaction site [polypeptide binding]; other site 171101000587 alphaNTD - beta' interaction site [polypeptide binding]; other site 171101000588 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 171101000589 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 171101000590 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 171101000591 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 171101000592 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 171101000593 catalytic core [active] 171101000594 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 171101000595 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 171101000596 dimer interface [polypeptide binding]; other site 171101000597 conserved gate region; other site 171101000598 putative PBP binding loops; other site 171101000599 ABC-ATPase subunit interface; other site 171101000600 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 171101000601 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 171101000602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101000603 Walker A/P-loop; other site 171101000604 ATP binding site [chemical binding]; other site 171101000605 Q-loop/lid; other site 171101000606 ABC transporter signature motif; other site 171101000607 Walker B; other site 171101000608 D-loop; other site 171101000609 H-loop/switch region; other site 171101000610 TOBE domain; Region: TOBE_2; cl01440 171101000611 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101000612 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101000613 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101000614 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 171101000615 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 171101000616 Helix-turn-helix domains; Region: HTH; cl00088 171101000617 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 171101000618 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 171101000619 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 171101000620 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 171101000621 active site 171101000622 methionine cluster; other site 171101000623 phosphorylation site [posttranslational modification] 171101000624 metal binding site [ion binding]; metal-binding site 171101000625 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 171101000626 active site 171101000627 P-loop; other site 171101000628 phosphorylation site [posttranslational modification] 171101000629 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101000630 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 171101000631 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 171101000632 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 171101000633 dimer interface [polypeptide binding]; other site 171101000634 active site 171101000635 glycine loop; other site 171101000636 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 171101000637 active site 171101000638 intersubunit interactions; other site 171101000639 catalytic residue [active] 171101000640 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 171101000641 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 171101000642 dimer interface [polypeptide binding]; other site 171101000643 active site 171101000644 metal binding site [ion binding]; metal-binding site 171101000645 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 171101000646 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 171101000647 HIGH motif; other site 171101000648 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 171101000649 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 171101000650 active site 171101000651 KMSKS motif; other site 171101000652 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 171101000653 tRNA binding surface [nucleotide binding]; other site 171101000654 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101000655 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101000656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101000657 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101000658 Coenzyme A binding pocket [chemical binding]; other site 171101000659 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 171101000660 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 171101000661 Walker A motif; other site 171101000662 ATP binding site [chemical binding]; other site 171101000663 Walker B motif; other site 171101000664 arginine finger; other site 171101000665 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 171101000666 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 171101000667 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 171101000668 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 171101000669 catalytic residue [active] 171101000670 putative FPP diphosphate binding site; other site 171101000671 putative FPP binding hydrophobic cleft; other site 171101000672 dimer interface [polypeptide binding]; other site 171101000673 putative IPP diphosphate binding site; other site 171101000674 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 171101000675 RIP metalloprotease RseP; Region: TIGR00054 171101000676 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 171101000677 active site 171101000678 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 171101000679 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 171101000680 putative substrate binding region [chemical binding]; other site 171101000681 prolyl-tRNA synthetase; Provisional; Region: PRK09194 171101000682 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 171101000683 dimer interface [polypeptide binding]; other site 171101000684 motif 1; other site 171101000685 active site 171101000686 motif 2; other site 171101000687 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 171101000688 putative deacylase active site [active] 171101000689 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 attaches...; Region: class_II_aaRS-like_core; cl00268 171101000690 active site 171101000691 motif 3; other site 171101000692 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 171101000693 anticodon binding site; other site 171101000694 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101000695 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 171101000696 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 171101000697 glutaminase active site [active] 171101000698 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 171101000699 dimer interface [polypeptide binding]; other site 171101000700 active site 171101000701 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 171101000702 dimer interface [polypeptide binding]; other site 171101000703 active site 171101000704 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 171101000705 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 171101000706 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101000707 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 171101000708 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 171101000709 carbohydrate binding site [chemical binding]; other site 171101000710 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 171101000711 carbohydrate binding site [chemical binding]; other site 171101000712 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 171101000713 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 171101000714 Ca binding site [ion binding]; other site 171101000715 active site 171101000716 catalytic site [active] 171101000717 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 171101000718 S17 interaction site [polypeptide binding]; other site 171101000719 S8 interaction site; other site 171101000720 16S rRNA interaction site [nucleotide binding]; other site 171101000721 streptomycin interaction site [chemical binding]; other site 171101000722 23S rRNA interaction site [nucleotide binding]; other site 171101000723 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 171101000724 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 171101000725 elongation factor G; Reviewed; Region: PRK00007 171101000726 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 171101000727 G1 box; other site 171101000728 putative GEF interaction site [polypeptide binding]; other site 171101000729 GTP/Mg2+ binding site [chemical binding]; other site 171101000730 Switch I region; other site 171101000731 G2 box; other site 171101000732 G3 box; other site 171101000733 Switch II region; other site 171101000734 G4 box; other site 171101000735 G5 box; other site 171101000736 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 171101000737 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 171101000738 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 171101000739 DNA polymerase III PolC; Validated; Region: polC; PRK00448 171101000740 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 171101000741 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 171101000742 generic binding surface II; other site 171101000743 generic binding surface I; other site 171101000744 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 171101000745 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 171101000746 active site 171101000747 substrate binding site [chemical binding]; other site 171101000748 catalytic site [active] 171101000749 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 171101000750 RelB antitoxin; Region: RelB; cl01171 171101000751 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 171101000752 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 171101000753 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 171101000754 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 171101000755 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 171101000756 RNA binding surface [nucleotide binding]; other site 171101000757 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 171101000758 active site 171101000759 uracil binding [chemical binding]; other site 171101000760 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 171101000761 trimer interface [polypeptide binding]; other site 171101000762 active site 171101000763 G bulge; other site 171101000764 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 171101000765 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 171101000766 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 171101000767 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 171101000768 active pocket/dimerization site; other site 171101000769 active site 171101000770 phosphorylation site [posttranslational modification] 171101000771 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 171101000772 active site 171101000773 phosphorylation site [posttranslational modification] 171101000774 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 171101000775 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 171101000776 NAD binding site [chemical binding]; other site 171101000777 substrate binding site [chemical binding]; other site 171101000778 catalytic Zn binding site [ion binding]; other site 171101000779 tetramer interface [polypeptide binding]; other site 171101000780 structural Zn binding site [ion binding]; other site 171101000781 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 171101000782 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 171101000783 active site 171101000784 motif I; other site 171101000785 motif II; other site 171101000786 Permease family; Region: Xan_ur_permease; cl00967 171101000787 CAAX protease self-immunity; Region: Abi; cl00558 171101000788 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 171101000789 dihydropteroate synthase; Region: DHPS; TIGR01496 171101000790 substrate binding pocket [chemical binding]; other site 171101000791 dimer interface [polypeptide binding]; other site 171101000792 inhibitor binding site; inhibition site 171101000793 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 171101000794 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101000795 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 171101000796 homodecamer interface [polypeptide binding]; other site 171101000797 GTP cyclohydrolase I; Provisional; Region: PLN03044 171101000798 active site 171101000799 putative catalytic site residues [active] 171101000800 zinc binding site [ion binding]; other site 171101000801 GTP-CH-I/GFRP interaction surface; other site 171101000802 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 171101000803 homooctamer interface [polypeptide binding]; other site 171101000804 active site 171101000805 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 171101000806 catalytic center binding site [active] 171101000807 ATP binding site [chemical binding]; other site 171101000808 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 171101000809 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 171101000810 23S rRNA interface [nucleotide binding]; other site 171101000811 L3 interface [polypeptide binding]; other site 171101000812 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 171101000813 Integrase core domain; Region: rve; cl01316 171101000814 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101000815 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 171101000816 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101000817 PQ loop repeat; Region: PQ-loop; cl12056 171101000818 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 171101000819 P-loop; other site 171101000820 active site 171101000821 phosphorylation site [posttranslational modification] 171101000822 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101000823 Helix-turn-helix domains; Region: HTH; cl00088 171101000824 Helix-turn-helix domains; Region: HTH; cl00088 171101000825 PRD domain; Region: PRD; cl15445 171101000826 PRD domain; Region: PRD; cl15445 171101000827 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 171101000828 P-loop; other site 171101000829 active site 171101000830 phosphorylation site [posttranslational modification] 171101000831 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 171101000832 active site 171101000833 phosphorylation site [posttranslational modification] 171101000834 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 171101000835 methionine cluster; other site 171101000836 active site 171101000837 phosphorylation site [posttranslational modification] 171101000838 metal binding site [ion binding]; metal-binding site 171101000839 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 171101000840 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101000841 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 171101000842 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 171101000843 putative active site [active] 171101000844 putative catalytic site [active] 171101000845 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 171101000846 catalytic residues [active] 171101000847 dimer interface [polypeptide binding]; other site 171101000848 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 171101000849 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 171101000850 substrate binding site [chemical binding]; other site 171101000851 catalytic residues [active] 171101000852 Entner-Doudoroff aldolase; Region: eda; TIGR01182 171101000853 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 171101000854 active site 171101000855 intersubunit interface [polypeptide binding]; other site 171101000856 catalytic residue [active] 171101000857 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 171101000858 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 171101000859 substrate binding site [chemical binding]; other site 171101000860 ATP binding site [chemical binding]; other site 171101000861 hypothetical protein; Provisional; Region: PRK09273 171101000862 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 171101000863 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 171101000864 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 171101000865 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 171101000866 NADP binding site [chemical binding]; other site 171101000867 homodimer interface [polypeptide binding]; other site 171101000868 active site 171101000869 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 171101000870 active pocket/dimerization site; other site 171101000871 active site 171101000872 phosphorylation site [posttranslational modification] 171101000873 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 171101000874 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 171101000875 active site 171101000876 phosphorylation site [posttranslational modification] 171101000877 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 171101000878 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 171101000879 Preprotein translocase subunit; Region: YajC; cl00806 171101000880 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 171101000881 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101000882 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101000883 DNA binding site [nucleotide binding] 171101000884 domain linker motif; other site 171101000885 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 171101000886 putative dimerization interface [polypeptide binding]; other site 171101000887 putative ligand binding site [chemical binding]; other site 171101000888 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 171101000889 non-specific DNA binding site [nucleotide binding]; other site 171101000890 salt bridge; other site 171101000891 sequence-specific DNA binding site [nucleotide binding]; other site 171101000892 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 171101000893 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101000894 Septum formation initiator; Region: DivIC; cl11433 171101000895 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 171101000896 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 171101000897 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 171101000898 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 171101000899 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 171101000900 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 171101000901 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 171101000902 Mg++ binding site [ion binding]; other site 171101000903 putative catalytic motif [active] 171101000904 putative substrate binding site [chemical binding]; other site 171101000905 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 171101000906 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 171101000907 Walker A motif; other site 171101000908 ATP binding site [chemical binding]; other site 171101000909 Walker B motif; other site 171101000910 arginine finger; other site 171101000911 UvrB/uvrC motif; Region: UVR; pfam02151 171101000912 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 171101000913 Walker A motif; other site 171101000914 ATP binding site [chemical binding]; other site 171101000915 Walker B motif; other site 171101000916 arginine finger; other site 171101000917 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 171101000918 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 171101000919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 171101000920 hypothetical protein; Provisional; Region: PRK13663 171101000921 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 171101000922 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 171101000923 Ca binding site [ion binding]; other site 171101000924 active site 171101000925 catalytic site [active] 171101000926 Integrase core domain; Region: rve; cl01316 171101000927 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101000928 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 171101000929 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 171101000930 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 171101000931 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 171101000932 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 171101000933 MatE; Region: MatE; cl10513 171101000934 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 171101000935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000936 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 171101000937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000939 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 171101000940 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 171101000941 substrate binding site; other site 171101000942 tetramer interface; other site 171101000943 Cupin domain; Region: Cupin_2; cl09118 171101000944 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 171101000945 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 171101000946 NAD binding site [chemical binding]; other site 171101000947 substrate binding site [chemical binding]; other site 171101000948 homodimer interface [polypeptide binding]; other site 171101000949 active site 171101000950 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 171101000951 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 171101000952 NADP binding site [chemical binding]; other site 171101000953 active site 171101000954 putative substrate binding site [chemical binding]; other site 171101000955 Integrase core domain; Region: rve; cl01316 171101000956 Integrase core domain; Region: rve; cl01316 171101000957 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 171101000958 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 171101000959 peptide binding site [polypeptide binding]; other site 171101000960 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101000961 Endo-alpha-N-acetylgalactosaminidase glycoside hydrolase; Region: Glyco_hydro_100; pfam12899 171101000962 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 171101000963 active site 171101000964 catalytic site [active] 171101000965 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; cl12042 171101000966 Transglycosylase; Region: Transgly; cl07896 171101000967 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 171101000968 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 171101000969 Recombination protein U; Region: RecU; cl01314 171101000970 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 171101000971 cell division protein GpsB; Provisional; Region: PRK14127 171101000972 DivIVA domain; Region: DivI1A_domain; TIGR03544 171101000973 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 171101000974 THUMP domain; Region: THUMP; cl12076 171101000975 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101000976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101000977 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 171101000978 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 171101000979 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101000980 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 171101000981 active site 171101000982 phosphorylation site [posttranslational modification] 171101000983 intermolecular recognition site; other site 171101000984 dimerization interface [polypeptide binding]; other site 171101000985 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 171101000986 DNA binding site [nucleotide binding] 171101000987 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101000988 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 171101000989 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 171101000990 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 171101000991 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 171101000992 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 171101000993 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 171101000994 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 171101000995 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 171101000996 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 171101000997 homotetramer interface [polypeptide binding]; other site 171101000998 FMN binding site [chemical binding]; other site 171101000999 homodimer contacts [polypeptide binding]; other site 171101001000 putative active site [active] 171101001001 putative substrate binding site [chemical binding]; other site 171101001002 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 171101001003 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101001004 Histidine kinase; Region: HisKA_3; pfam07730 171101001005 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 171101001006 ATP binding site [chemical binding]; other site 171101001007 Mg2+ binding site [ion binding]; other site 171101001008 G-X-G motif; other site 171101001009 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 171101001010 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 171101001011 active site 171101001012 phosphorylation site [posttranslational modification] 171101001013 intermolecular recognition site; other site 171101001014 dimerization interface [polypeptide binding]; other site 171101001015 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 171101001016 DNA binding residues [nucleotide binding] 171101001017 dimerization interface [polypeptide binding]; other site 171101001018 A new structural DNA glycosylase; Region: AlkD_like; cl11434 171101001019 A new structural DNA glycosylase; Region: AlkD_like; cl11434 171101001020 A new structural DNA glycosylase; Region: AlkD_like; cl11434 171101001021 active site 171101001022 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 171101001023 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101001024 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101001025 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101001026 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101001027 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101001028 putative transposase OrfB; Reviewed; Region: PHA02517 171101001029 Integrase core domain; Region: rve; cl01316 171101001030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 171101001031 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 171101001032 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101001033 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 171101001034 active site 171101001035 P-loop; other site 171101001036 phosphorylation site [posttranslational modification] 171101001037 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 171101001038 active site 171101001039 P-loop; other site 171101001040 phosphorylation site [posttranslational modification] 171101001041 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101001042 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 171101001043 P-loop; other site 171101001044 active site 171101001045 phosphorylation site [posttranslational modification] 171101001046 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 171101001047 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 171101001048 active site 171101001049 phosphorylation site [posttranslational modification] 171101001050 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 171101001051 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 171101001052 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 171101001053 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 171101001054 trigger factor; Provisional; Region: tig; PRK01490 171101001055 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 171101001056 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 171101001057 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 171101001058 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 171101001059 DNA binding site [nucleotide binding] 171101001060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001062 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 171101001063 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 171101001064 Catalytic site [active] 171101001065 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 171101001066 ribonuclease HIII; Provisional; Region: PRK00996 171101001067 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 171101001068 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 171101001069 RNA/DNA hybrid binding site [nucleotide binding]; other site 171101001070 active site 171101001071 Colicin V production protein; Region: Colicin_V; cl00567 171101001072 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 171101001073 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 171101001074 Walker A/P-loop; other site 171101001075 ATP binding site [chemical binding]; other site 171101001076 Q-loop/lid; other site 171101001077 ABC transporter signature motif; other site 171101001078 Walker B; other site 171101001079 D-loop; other site 171101001080 H-loop/switch region; other site 171101001081 Smr domain; Region: Smr; cl02619 171101001082 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 171101001083 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 171101001084 Uncharacterized conserved protein [Function unknown]; Region: COG2128 171101001085 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 171101001086 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 171101001087 gating phenylalanine in ion channel; other site 171101001088 seryl-tRNA synthetase; Provisional; Region: PRK05431 171101001089 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 171101001090 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 bound...; Region: SerRS_core; cd00770 171101001091 dimer interface [polypeptide binding]; other site 171101001092 active site 171101001093 motif 1; other site 171101001094 motif 2; other site 171101001095 motif 3; other site 171101001096 Domain of unknown function (DUF956); Region: DUF956; cl01917 171101001097 aspartate kinase; Reviewed; Region: PRK09034 171101001098 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 171101001099 putative catalytic residues [active] 171101001100 putative nucleotide binding site [chemical binding]; other site 171101001101 putative aspartate binding site [chemical binding]; other site 171101001102 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 171101001103 allosteric regulatory residue; other site 171101001104 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 171101001105 enoyl-CoA hydratase; Provisional; Region: PRK07260 171101001106 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 171101001107 substrate binding site [chemical binding]; other site 171101001108 oxyanion hole (OAH) forming residues; other site 171101001109 trimer interface [polypeptide binding]; other site 171101001110 Helix-turn-helix domains; Region: HTH; cl00088 171101001111 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 171101001112 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 171101001113 dimer interface [polypeptide binding]; other site 171101001114 active site 171101001115 CoA binding pocket [chemical binding]; other site 171101001116 Phosphopantetheine attachment site; Region: PP-binding; cl09936 171101001117 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 171101001118 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 171101001119 FMN binding site [chemical binding]; other site 171101001120 substrate binding site [chemical binding]; other site 171101001121 putative catalytic residue [active] 171101001122 Acyl transferase domain; Region: Acyl_transf_1; cl08282 171101001123 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 171101001124 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 171101001125 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 171101001126 NAD(P) binding site [chemical binding]; other site 171101001127 homotetramer interface [polypeptide binding]; other site 171101001128 homodimer interface [polypeptide binding]; other site 171101001129 active site 171101001130 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 171101001131 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 171101001132 dimer interface [polypeptide binding]; other site 171101001133 active site 171101001134 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 171101001135 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 171101001136 carboxyltransferase (CT) interaction site; other site 171101001137 biotinylation site [posttranslational modification]; other site 171101001138 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 171101001139 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 171101001140 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 171101001141 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 171101001142 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 171101001143 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 171101001144 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 171101001145 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 171101001146 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 171101001147 putative RNA binding site [nucleotide binding]; other site 171101001148 Protein of unknown function (DUF322); Region: DUF322; cl00574 171101001149 elongation factor P; Validated; Region: PRK00529 171101001150 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 171101001151 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 171101001152 RNA binding site [nucleotide binding]; other site 171101001153 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 171101001154 RNA binding site [nucleotide binding]; other site 171101001155 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 171101001156 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 171101001157 GatB domain; Region: GatB_Yqey; cl11497 171101001158 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 171101001159 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 171101001160 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 171101001161 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 171101001162 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 171101001163 G1 box; other site 171101001164 putative GEF interaction site [polypeptide binding]; other site 171101001165 GTP/Mg2+ binding site [chemical binding]; other site 171101001166 Switch I region; other site 171101001167 G2 box; other site 171101001168 G3 box; other site 171101001169 Switch II region; other site 171101001170 G4 box; other site 171101001171 G5 box; other site 171101001172 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 171101001173 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 171101001174 Ligand binding site; other site 171101001175 metal-binding site 171101001176 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 171101001177 Protein of unknown function (DUF322); Region: DUF322; cl00574 171101001178 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 171101001179 DAK2 domain; Region: Dak2; cl03685 171101001180 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 171101001181 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 171101001182 PYR/PP interface [polypeptide binding]; other site 171101001183 dimer interface [polypeptide binding]; other site 171101001184 TPP binding site [chemical binding]; other site 171101001185 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 171101001186 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 171101001187 TPP-binding site [chemical binding]; other site 171101001188 dimer interface [polypeptide binding]; other site 171101001189 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 171101001190 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 171101001191 putative valine binding site [chemical binding]; other site 171101001192 dimer interface [polypeptide binding]; other site 171101001193 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 171101001194 ketol-acid reductoisomerase; Provisional; Region: PRK05479 171101001195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001196 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 171101001197 threonine dehydratase; Validated; Region: PRK08639 171101001198 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 171101001199 tetramer interface [polypeptide binding]; other site 171101001200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101001201 catalytic residue [active] 171101001202 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 171101001203 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101001204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001205 Walker A/P-loop; other site 171101001206 ATP binding site [chemical binding]; other site 171101001207 Q-loop/lid; other site 171101001208 ABC transporter signature motif; other site 171101001209 Walker B; other site 171101001210 D-loop; other site 171101001211 H-loop/switch region; other site 171101001212 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 171101001213 dimer interface [polypeptide binding]; other site 171101001214 conserved gate region; other site 171101001215 putative PBP binding loops; other site 171101001216 ABC-ATPase subunit interface; other site 171101001217 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 171101001218 Predicted membrane protein [Function unknown]; Region: COG4907 171101001219 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 171101001220 Bacitracin resistance protein BacA; Region: BacA; cl00858 171101001221 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 171101001222 active site 171101001223 DNA polymerase IV; Validated; Region: PRK02406 171101001224 DNA binding site [nucleotide binding] 171101001225 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 171101001226 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 171101001227 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 171101001228 Helix-turn-helix domains; Region: HTH; cl00088 171101001229 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101001230 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 171101001231 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101001232 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 171101001233 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 171101001234 methionine cluster; other site 171101001235 active site 171101001236 phosphorylation site [posttranslational modification] 171101001237 metal binding site [ion binding]; metal-binding site 171101001238 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101001239 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101001240 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 171101001241 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 171101001242 P-loop; other site 171101001243 active site 171101001244 phosphorylation site [posttranslational modification] 171101001245 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 171101001246 Cation transport protein; Region: TrkH; cl10514 171101001247 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 171101001248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001249 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; cl15357 171101001250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001251 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; cl15357 171101001252 Uncharacterized conserved protein [Function unknown]; Region: COG1912 171101001253 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 171101001254 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 171101001255 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 171101001256 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 171101001257 Walker A/P-loop; other site 171101001258 ATP binding site [chemical binding]; other site 171101001259 Q-loop/lid; other site 171101001260 ABC transporter signature motif; other site 171101001261 Walker B; other site 171101001262 D-loop; other site 171101001263 H-loop/switch region; other site 171101001264 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 171101001265 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 171101001266 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 171101001267 Walker A/P-loop; other site 171101001268 ATP binding site [chemical binding]; other site 171101001269 Q-loop/lid; other site 171101001270 ABC transporter signature motif; other site 171101001271 Walker B; other site 171101001272 D-loop; other site 171101001273 H-loop/switch region; other site 171101001274 Cobalt transport protein; Region: CbiQ; cl00463 171101001275 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 171101001276 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 171101001277 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 171101001278 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 171101001279 active site 171101001280 ParB-like nuclease domain; Region: ParBc; cl02129 171101001281 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101001282 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 171101001283 CTP synthetase; Validated; Region: pyrG; PRK05380 171101001284 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 171101001285 Catalytic site [active] 171101001286 active site 171101001287 UTP binding site [chemical binding]; other site 171101001288 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 171101001289 active site 171101001290 putative oxyanion hole; other site 171101001291 catalytic triad [active] 171101001292 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 171101001293 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 171101001294 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 171101001295 PhoU domain; Region: PhoU; pfam01895 171101001296 PhoU domain; Region: PhoU; pfam01895 171101001297 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101001298 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the...; Region: GH85_ENGase; cd06547 171101001299 putative active site [active] 171101001300 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; cl12042 171101001301 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 171101001302 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 171101001303 G5 domain; Region: G5; pfam07501 171101001304 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 171101001305 Phosphoglycerate kinase; Region: PGK; pfam00162 171101001306 substrate binding site [chemical binding]; other site 171101001307 hinge regions; other site 171101001308 ADP binding site [chemical binding]; other site 171101001309 catalytic site [active] 171101001310 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 171101001311 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 171101001312 DNA binding residues [nucleotide binding] 171101001313 putative dimer interface [polypeptide binding]; other site 171101001314 glutamine synthetase, type I; Region: GlnA; TIGR00653 171101001315 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 171101001316 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 171101001317 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 171101001318 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001319 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001320 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001321 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 171101001322 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 171101001323 Int/Topo IB signature motif; other site 171101001324 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001325 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 171101001326 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001327 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 171101001328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101001329 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101001330 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 171101001331 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 171101001332 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 171101001333 ATP binding site [chemical binding]; other site 171101001334 putative Mg++ binding site [ion binding]; other site 171101001335 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 171101001336 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 171101001337 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 171101001338 Helix-turn-helix domains; Region: HTH; cl00088 171101001339 HrcA protein C terminal domain; Region: HrcA; pfam01628 171101001340 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 171101001341 dimer interface [polypeptide binding]; other site 171101001342 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 171101001343 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 171101001344 chaperone protein DnaJ; Provisional; Region: PRK14276 171101001345 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 171101001346 HSP70 interaction site [polypeptide binding]; other site 171101001347 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 171101001348 substrate binding site [polypeptide binding]; other site 171101001349 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 171101001350 Zn binding sites [ion binding]; other site 171101001351 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 171101001352 substrate binding site [polypeptide binding]; other site 171101001353 dimer interface [polypeptide binding]; other site 171101001354 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 171101001355 HIT family signature motif; other site 171101001356 catalytic residue [active] 171101001357 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 171101001358 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 171101001359 Walker A/P-loop; other site 171101001360 ATP binding site [chemical binding]; other site 171101001361 Q-loop/lid; other site 171101001362 ABC transporter signature motif; other site 171101001363 Walker B; other site 171101001364 D-loop; other site 171101001365 H-loop/switch region; other site 171101001366 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 171101001367 LytTr DNA-binding domain; Region: LytTR; cl04498 171101001368 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 171101001369 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 171101001370 active site 171101001371 phosphorylation site [posttranslational modification] 171101001372 intermolecular recognition site; other site 171101001373 dimerization interface [polypeptide binding]; other site 171101001374 LytTr DNA-binding domain; Region: LytTR; cl04498 171101001375 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 171101001376 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 171101001377 COMC family; Region: ComC; pfam03047 171101001378 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 171101001379 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 171101001380 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101001381 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101001382 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001383 Walker A/P-loop; other site 171101001384 ATP binding site [chemical binding]; other site 171101001385 Q-loop/lid; other site 171101001386 ABC transporter signature motif; other site 171101001387 Walker B; other site 171101001388 D-loop; other site 171101001389 H-loop/switch region; other site 171101001390 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 bacteriocins; Region: Peptidase_C39B; cd02418 171101001391 putative active site [active] 171101001392 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101001393 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101001394 Phosphotransferase enzyme family; Region: APH; pfam01636 171101001395 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; cl15691 171101001396 substrate binding site [chemical binding]; other site 171101001397 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 171101001398 S-adenosylmethionine binding site [chemical binding]; other site 171101001399 ribosome maturation protein RimP; Reviewed; Region: PRK00092 171101001400 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 171101001401 Sm1 motif; other site 171101001402 predicted subunit interaction site [polypeptide binding]; other site 171101001403 RNA binding pocket [nucleotide binding]; other site 171101001404 Sm2 motif; other site 171101001405 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 171101001406 NusA N-terminal domain; Region: NusA_N; pfam08529 171101001407 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 171101001408 RNA binding site [nucleotide binding]; other site 171101001409 homodimer interface [polypeptide binding]; other site 171101001410 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 171101001411 G-X-X-G motif; other site 171101001412 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 171101001413 putative RNA binding cleft [nucleotide binding]; other site 171101001414 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 171101001415 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 171101001416 translation initiation factor IF-2; Validated; Region: infB; PRK05306 171101001417 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 171101001418 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 171101001419 G1 box; other site 171101001420 putative GEF interaction site [polypeptide binding]; other site 171101001421 GTP/Mg2+ binding site [chemical binding]; other site 171101001422 Switch I region; other site 171101001423 G2 box; other site 171101001424 G3 box; other site 171101001425 Switch II region; other site 171101001426 G4 box; other site 171101001427 G5 box; other site 171101001428 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 171101001429 Translation-initiation factor 2; Region: IF-2; pfam11987 171101001430 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 171101001431 Ribosome-binding factor A; Region: RBFA; cl00542 171101001432 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 171101001433 Uncharacterized conserved protein [Function unknown]; Region: COG2461 171101001434 Family of unknown function (DUF438); Region: DUF438; pfam04282 171101001435 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 171101001436 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 171101001437 Flavin Reductases; Region: FlaRed; cl00801 171101001438 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101001439 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101001440 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 171101001441 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 171101001442 active site 171101001443 HIGH motif; other site 171101001444 nucleotide binding site [chemical binding]; other site 171101001445 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 171101001446 active site 171101001447 KMSKS motif; other site 171101001448 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 171101001449 tRNA binding surface [nucleotide binding]; other site 171101001450 anticodon binding site; other site 171101001451 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 171101001452 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 171101001453 Fic/DOC family; Region: Fic; cl00960 171101001454 Integrase core domain; Region: rve_3; cl15866 171101001455 Integrase core domain; Region: rve; cl01316 171101001456 putative transposase OrfB; Reviewed; Region: PHA02517 171101001457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 171101001458 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 171101001459 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001460 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 171101001461 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 171101001462 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 171101001463 transcriptional antiterminator BglG; Provisional; Region: PRK09772 171101001464 CAT RNA binding domain; Region: CAT_RBD; cl03904 171101001465 PRD domain; Region: PRD; cl15445 171101001466 PRD domain; Region: PRD; cl15445 171101001467 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 171101001468 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 171101001469 active site turn [active] 171101001470 phosphorylation site [posttranslational modification] 171101001471 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101001472 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 171101001473 HPr interaction site; other site 171101001474 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101001475 active site 171101001476 phosphorylation site [posttranslational modification] 171101001477 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101001478 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 171101001479 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 171101001480 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 171101001481 dimer interface [polypeptide binding]; other site 171101001482 motif 1; other site 171101001483 active site 171101001484 motif 2; other site 171101001485 motif 3; other site 171101001486 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 171101001487 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101001488 Coenzyme A binding pocket [chemical binding]; other site 171101001489 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 171101001490 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 171101001491 putative tRNA-binding site [nucleotide binding]; other site 171101001492 B3/4 domain; Region: B3_4; cl11458 171101001493 tRNA synthetase B5 domain; Region: B5; cl08394 171101001494 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 171101001495 dimer interface [polypeptide binding]; other site 171101001496 motif 1; other site 171101001497 motif 3; other site 171101001498 motif 2; other site 171101001499 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 171101001500 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 171101001501 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; cl15358 171101001502 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 171101001503 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 171101001504 non-specific DNA binding site [nucleotide binding]; other site 171101001505 salt bridge; other site 171101001506 sequence-specific DNA binding site [nucleotide binding]; other site 171101001507 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 171101001508 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 171101001509 THF binding site; other site 171101001510 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 171101001511 substrate binding site [chemical binding]; other site 171101001512 THF binding site; other site 171101001513 zinc-binding site [ion binding]; other site 171101001514 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 171101001515 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 171101001516 FAD binding site [chemical binding]; other site 171101001517 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 171101001518 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 171101001519 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 171101001520 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 171101001521 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 171101001522 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 171101001523 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 171101001524 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 171101001525 RNA binding site [nucleotide binding]; other site 171101001526 domain interface; other site 171101001527 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 171101001528 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 171101001529 trimer interface [polypeptide binding]; other site 171101001530 active site 171101001531 substrate binding site [chemical binding]; other site 171101001532 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101001533 Coenzyme A binding pocket [chemical binding]; other site 171101001534 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101001535 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 171101001536 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 171101001537 active site 171101001538 HIGH motif; other site 171101001539 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 171101001540 KMSKS motif; other site 171101001541 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 171101001542 tRNA binding surface [nucleotide binding]; other site 171101001543 anticodon binding site; other site 171101001544 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 171101001545 active site 171101001546 metal binding site [ion binding]; metal-binding site 171101001547 dimerization interface [polypeptide binding]; other site 171101001548 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 171101001549 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 171101001550 FtsX-like permease family; Region: FtsX; pfam02687 171101001551 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101001552 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101001553 Walker A/P-loop; other site 171101001554 ATP binding site [chemical binding]; other site 171101001555 Q-loop/lid; other site 171101001556 ABC transporter signature motif; other site 171101001557 Walker B; other site 171101001558 D-loop; other site 171101001559 H-loop/switch region; other site 171101001560 FtsX-like permease family; Region: FtsX; cl15850 171101001561 similar to signal peptide 171101001562 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101001563 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 171101001564 active site 171101001565 phosphorylation site [posttranslational modification] 171101001566 intermolecular recognition site; other site 171101001567 dimerization interface [polypeptide binding]; other site 171101001568 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 171101001569 DNA binding site [nucleotide binding] 171101001570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101001571 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 171101001572 dimerization interface [polypeptide binding]; other site 171101001573 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 171101001574 dimer interface [polypeptide binding]; other site 171101001575 phosphorylation site [posttranslational modification] 171101001576 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 171101001577 ATP binding site [chemical binding]; other site 171101001578 Mg2+ binding site [ion binding]; other site 171101001579 G-X-G motif; other site 171101001580 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 171101001581 hypothetical protein; Provisional; Region: PRK08185 171101001582 intersubunit interface [polypeptide binding]; other site 171101001583 active site 171101001584 zinc binding site [ion binding]; other site 171101001585 Na+ binding site [ion binding]; other site 171101001586 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 171101001587 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 171101001588 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 171101001589 FAD binding pocket [chemical binding]; other site 171101001590 FAD binding motif [chemical binding]; other site 171101001591 phosphate binding motif [ion binding]; other site 171101001592 beta-alpha-beta structure motif; other site 171101001593 NAD binding pocket [chemical binding]; other site 171101001594 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 171101001595 dimer interface [polypeptide binding]; other site 171101001596 conserved gate region; other site 171101001597 putative PBP binding loops; other site 171101001598 ABC-ATPase subunit interface; other site 171101001599 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 171101001600 dimer interface [polypeptide binding]; other site 171101001601 conserved gate region; other site 171101001602 putative PBP binding loops; other site 171101001603 ABC-ATPase subunit interface; other site 171101001604 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 171101001605 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 171101001606 substrate binding pocket [chemical binding]; other site 171101001607 membrane-bound complex binding site; other site 171101001608 hinge residues; other site 171101001609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001610 ABC transporter signature motif; other site 171101001611 Walker B; other site 171101001612 D-loop; other site 171101001613 H-loop/switch region; other site 171101001614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001615 Walker A/P-loop; other site 171101001616 ATP binding site [chemical binding]; other site 171101001617 Q-loop/lid; other site 171101001618 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 171101001619 DHH family; Region: DHH; pfam01368 171101001620 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 171101001621 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 171101001622 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101001623 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 171101001624 Predicted esterase [General function prediction only]; Region: COG0627 171101001625 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 171101001626 FemAB family; Region: FemAB; cl11444 171101001627 FemAB family; Region: FemAB; cl11444 171101001628 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5549 171101001629 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 171101001630 active site 171101001631 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 171101001632 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 171101001633 GIY-YIG motif/motif A; other site 171101001634 active site 171101001635 catalytic site [active] 171101001636 putative DNA binding site [nucleotide binding]; other site 171101001637 metal binding site [ion binding]; metal-binding site 171101001638 UvrB/uvrC motif; Region: UVR; pfam02151 171101001639 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 171101001640 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 171101001641 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 171101001642 active site 171101001643 metal binding site [ion binding]; metal-binding site 171101001644 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101001645 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 171101001646 substrate binding pocket [chemical binding]; other site 171101001647 membrane-bound complex binding site; other site 171101001648 hinge residues; other site 171101001649 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 171101001650 dimer interface [polypeptide binding]; other site 171101001651 FMN binding site [chemical binding]; other site 171101001652 dipeptidase PepV; Reviewed; Region: PRK07318 171101001653 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 171101001654 active site 171101001655 metal binding site [ion binding]; metal-binding site 171101001656 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 171101001657 putative uracil binding site [chemical binding]; other site 171101001658 putative active site [active] 171101001659 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 171101001660 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 171101001661 active site residue [active] 171101001662 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 171101001663 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 171101001664 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 171101001665 putative oligomer interface [polypeptide binding]; other site 171101001666 putative active site [active] 171101001667 metal binding site [ion binding]; metal-binding site 171101001668 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 171101001669 nucleotide binding site/active site [active] 171101001670 HIT family signature motif; other site 171101001671 catalytic residue [active] 171101001672 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 171101001673 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 171101001674 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 171101001675 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 171101001676 23S rRNA interface [nucleotide binding]; other site 171101001677 L7/L12 interface [polypeptide binding]; other site 171101001678 putative thiostrepton binding site; other site 171101001679 L25 interface [polypeptide binding]; other site 171101001680 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 171101001681 mRNA/rRNA interface [nucleotide binding]; other site 171101001682 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 171101001683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001684 Walker A/P-loop; other site 171101001685 ATP binding site [chemical binding]; other site 171101001686 Q-loop/lid; other site 171101001687 ABC transporter signature motif; other site 171101001688 Walker B; other site 171101001689 D-loop; other site 171101001690 H-loop/switch region; other site 171101001691 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 171101001692 Protein of unknown function (DUF990); Region: DUF990; cl01496 171101001693 Protein of unknown function (DUF990); Region: DUF990; cl01496 171101001694 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 171101001695 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101001696 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 171101001697 putative active site [active] 171101001698 catalytic triad [active] 171101001699 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 171101001700 PA/protease or protease-like domain interface [polypeptide binding]; other site 171101001701 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 171101001702 catalytic residues [active] 171101001703 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 171101001704 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 171101001705 active site 171101001706 phosphorylation site [posttranslational modification] 171101001707 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 171101001708 P-loop; other site 171101001709 active site 171101001710 phosphorylation site [posttranslational modification] 171101001711 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 171101001712 heme uptake protein IsdB; Region: IsdB; TIGR03657 171101001713 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101001714 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 171101001715 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 171101001716 domain; Region: Glyco_hydro_2; pfam00703 171101001717 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001718 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001719 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001720 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001721 G5 domain; Region: G5; pfam07501 171101001722 BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in...; Region: BAH; cl02608 171101001723 Transposase domain (DUF772); Region: DUF772; cl12084 171101001724 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 171101001725 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 171101001726 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 171101001727 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101001728 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101001729 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 171101001730 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 171101001731 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 171101001732 LysE type translocator; Region: LysE; cl00565 171101001733 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 171101001734 catalytic residues [active] 171101001735 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 171101001736 SelR domain; Region: SelR; cl00369 171101001737 Response regulator receiver domain; Region: Response_reg; pfam00072 171101001738 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 171101001739 active site 171101001740 phosphorylation site [posttranslational modification] 171101001741 intermolecular recognition site; other site 171101001742 dimerization interface [polypeptide binding]; other site 171101001743 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 171101001744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101001745 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 171101001746 Cache domain; Region: Cache_1; pfam02743 171101001747 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 171101001748 dimerization interface [polypeptide binding]; other site 171101001749 Histidine kinase; Region: His_kinase; pfam06580 171101001750 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 171101001751 ATP binding site [chemical binding]; other site 171101001752 Mg2+ binding site [ion binding]; other site 171101001753 G-X-G motif; other site 171101001754 Protein of unknown function (DUF436); Region: DUF436; cl01860 171101001755 Gram positive anchor; Region: Gram_pos_anchor; cl15427 171101001756 G5 domain; Region: G5; pfam07501 171101001757 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 171101001758 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 171101001759 aminodeoxychorismate synthase; Provisional; Region: PRK07508 171101001760 chorismate binding enzyme; Region: Chorismate_bind; cl10555 171101001761 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 171101001762 substrate-cofactor binding pocket; other site 171101001763 homodimer interface [polypeptide binding]; other site 171101001764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101001765 catalytic residue [active] 171101001766 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101001767 Excalibur calcium-binding domain; Region: Excalibur; cl05460 171101001768 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 171101001769 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 171101001770 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 171101001771 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 171101001772 dimerization interface [polypeptide binding]; other site 171101001773 active site 171101001774 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 171101001775 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 171101001776 IPP transferase; Region: IPPT; cl00403 171101001777 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 171101001778 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 171101001779 G1 box; other site 171101001780 GTP/Mg2+ binding site [chemical binding]; other site 171101001781 Switch I region; other site 171101001782 G2 box; other site 171101001783 G3 box; other site 171101001784 Switch II region; other site 171101001785 G4 box; other site 171101001786 G5 box; other site 171101001787 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 171101001788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101001789 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 171101001790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001791 NAD(P) binding site [chemical binding]; other site 171101001792 active site 171101001793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 171101001794 Helix-turn-helix domains; Region: HTH; cl00088 171101001795 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 171101001796 dimerization interface [polypeptide binding]; other site 171101001797 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 171101001798 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 171101001799 active site residue [active] 171101001800 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 171101001801 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 171101001802 RNA binding surface [nucleotide binding]; other site 171101001803 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 171101001804 active site 171101001805 uracil binding [chemical binding]; other site 171101001806 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 171101001807 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 171101001808 G1 box; other site 171101001809 putative GEF interaction site [polypeptide binding]; other site 171101001810 GTP/Mg2+ binding site [chemical binding]; other site 171101001811 Switch I region; other site 171101001812 G2 box; other site 171101001813 G3 box; other site 171101001814 Switch II region; other site 171101001815 G4 box; other site 171101001816 G5 box; other site 171101001817 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 171101001818 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 171101001819 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 171101001820 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 171101001821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 171101001822 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 171101001823 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101001824 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101001825 Walker A/P-loop; other site 171101001826 ATP binding site [chemical binding]; other site 171101001827 Q-loop/lid; other site 171101001828 ABC transporter signature motif; other site 171101001829 Walker B; other site 171101001830 D-loop; other site 171101001831 H-loop/switch region; other site 171101001832 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 171101001833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001834 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 171101001835 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101001836 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 171101001837 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 171101001838 homodimer interface [polypeptide binding]; other site 171101001839 active site 171101001840 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 171101001841 Cell division protein FtsQ; Region: FtsQ; pfam03799 171101001842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001843 ATP binding site [chemical binding]; other site 171101001844 substrate interface [chemical binding]; other site 171101001845 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001847 Q-loop/lid; other site 171101001848 ABC transporter signature motif; other site 171101001849 Walker B; other site 171101001850 D-loop; other site 171101001851 H-loop/switch region; other site 171101001852 Integrase core domain; Region: rve; cl01316 171101001853 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 171101001854 active site 171101001855 dimer interface [polypeptide binding]; other site 171101001856 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101001857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001858 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 171101001859 Walker A/P-loop; other site 171101001860 ATP binding site [chemical binding]; other site 171101001861 Q-loop/lid; other site 171101001862 ABC transporter signature motif; other site 171101001863 Walker B; other site 171101001864 D-loop; other site 171101001865 H-loop/switch region; other site 171101001866 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 171101001867 substrate binding pocket [chemical binding]; other site 171101001868 membrane-bound complex binding site; other site 171101001869 hinge residues; other site 171101001870 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 171101001871 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101001872 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 171101001873 Walker A/P-loop; other site 171101001874 ATP binding site [chemical binding]; other site 171101001875 Q-loop/lid; other site 171101001876 ABC transporter signature motif; other site 171101001877 Walker B; other site 171101001878 D-loop; other site 171101001879 H-loop/switch region; other site 171101001880 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 171101001881 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 171101001882 dimer interface [polypeptide binding]; other site 171101001883 conserved gate region; other site 171101001884 putative PBP binding loops; other site 171101001885 ABC-ATPase subunit interface; other site 171101001886 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 171101001887 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 171101001888 dimer interface [polypeptide binding]; other site 171101001889 conserved gate region; other site 171101001890 putative PBP binding loops; other site 171101001891 ABC-ATPase subunit interface; other site 171101001892 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 171101001893 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 171101001894 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 171101001895 dimer interface [polypeptide binding]; other site 171101001896 putative anticodon binding site; other site 171101001897 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 171101001898 motif 1; other site 171101001899 active site 171101001900 motif 2; other site 171101001901 motif 3; other site 171101001902 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 171101001903 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 171101001904 teramer interface [polypeptide binding]; other site 171101001905 active site 171101001906 FMN binding site [chemical binding]; other site 171101001907 catalytic residues [active] 171101001908 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 171101001909 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 171101001910 substrate binding site [chemical binding]; other site 171101001911 multimerization interface [polypeptide binding]; other site 171101001912 ATP binding site [chemical binding]; other site 171101001913 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 171101001914 thiamine phosphate binding site [chemical binding]; other site 171101001915 active site 171101001916 pyrophosphate binding site [ion binding]; other site 171101001917 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 171101001918 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 171101001919 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 171101001920 Walker A/P-loop; other site 171101001921 ATP binding site [chemical binding]; other site 171101001922 Q-loop/lid; other site 171101001923 ABC transporter signature motif; other site 171101001924 Walker B; other site 171101001925 D-loop; other site 171101001926 H-loop/switch region; other site 171101001927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101001928 Walker A/P-loop; other site 171101001929 ATP binding site [chemical binding]; other site 171101001930 Q-loop/lid; other site 171101001931 ABC transporter signature motif; other site 171101001932 Walker B; other site 171101001933 D-loop; other site 171101001934 H-loop/switch region; other site 171101001935 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 171101001936 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 171101001937 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 171101001938 substrate binding site [chemical binding]; other site 171101001939 multimerization interface [polypeptide binding]; other site 171101001940 ATP binding site [chemical binding]; other site 171101001941 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 171101001942 thiamine phosphate binding site [chemical binding]; other site 171101001943 active site 171101001944 pyrophosphate binding site [ion binding]; other site 171101001945 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 171101001946 dimer interface [polypeptide binding]; other site 171101001947 substrate binding site [chemical binding]; other site 171101001948 ATP binding site [chemical binding]; other site 171101001949 Helix-turn-helix domains; Region: HTH; cl00088 171101001950 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 171101001951 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 171101001952 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 171101001953 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 171101001954 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101001955 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101001956 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 171101001957 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 171101001958 PYR/PP interface [polypeptide binding]; other site 171101001959 tetramer interface [polypeptide binding]; other site 171101001960 dimer interface [polypeptide binding]; other site 171101001961 TPP binding site [chemical binding]; other site 171101001962 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 171101001963 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 171101001964 TPP-binding site [chemical binding]; other site 171101001965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 171101001966 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 171101001967 active site 171101001968 metal binding site [ion binding]; metal-binding site 171101001969 Integrase core domain; Region: rve; cl01316 171101001970 Winged helix-turn helix; Region: HTH_29; pfam13551 171101001971 Winged helix-turn helix; Region: HTH_33; pfam13592 171101001972 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101001973 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 171101001974 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 171101001975 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 171101001976 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 171101001977 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 171101001978 dimer interface [polypeptide binding]; other site 171101001979 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 171101001980 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 171101001981 putative active site [active] 171101001982 nucleotide binding site [chemical binding]; other site 171101001983 nudix motif; other site 171101001984 putative metal binding site [ion binding]; other site 171101001985 Predicted flavoproteins [General function prediction only]; Region: COG2081 171101001986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001987 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 171101001988 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 171101001989 Helix-turn-helix domains; Region: HTH; cl00088 171101001990 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 171101001991 catalytic motif [active] 171101001992 Zn binding site [ion binding]; other site 171101001993 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101001994 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 171101001995 oligomer interface [polypeptide binding]; other site 171101001996 active site residues [active] 171101001997 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 171101001998 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 171101001999 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 171101002000 putative ligand binding site [chemical binding]; other site 171101002001 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 171101002002 TM-ABC transporter signature motif; other site 171101002003 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 171101002004 TM-ABC transporter signature motif; other site 171101002005 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 171101002006 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 171101002007 Walker A/P-loop; other site 171101002008 ATP binding site [chemical binding]; other site 171101002009 Q-loop/lid; other site 171101002010 ABC transporter signature motif; other site 171101002011 Walker B; other site 171101002012 D-loop; other site 171101002013 H-loop/switch region; other site 171101002014 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 171101002015 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 171101002016 Walker A/P-loop; other site 171101002017 ATP binding site [chemical binding]; other site 171101002018 Q-loop/lid; other site 171101002019 ABC transporter signature motif; other site 171101002020 Walker B; other site 171101002021 D-loop; other site 171101002022 H-loop/switch region; other site 171101002023 FOG: CBS domain [General function prediction only]; Region: COG0517 171101002024 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 171101002025 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 171101002026 peptide chain release factor 2; Region: prfB; TIGR00020 171101002027 RF-1 domain; Region: RF-1; cl02875 171101002028 RF-1 domain; Region: RF-1; cl02875 171101002029 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 171101002030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002031 Walker A/P-loop; other site 171101002032 ATP binding site [chemical binding]; other site 171101002033 Q-loop/lid; other site 171101002034 ABC transporter signature motif; other site 171101002035 Walker B; other site 171101002036 D-loop; other site 171101002037 H-loop/switch region; other site 171101002038 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 171101002039 FtsX-like permease family; Region: FtsX; pfam02687 171101002040 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101002041 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 171101002042 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 171101002043 active site turn [active] 171101002044 phosphorylation site [posttranslational modification] 171101002045 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 171101002046 HPr interaction site; other site 171101002047 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101002048 active site 171101002049 phosphorylation site [posttranslational modification] 171101002050 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 171101002051 putative catalytic site [active] 171101002052 putative metal binding site [ion binding]; other site 171101002053 putative phosphate binding site [ion binding]; other site 171101002054 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 171101002055 DEAD-like helicases superfamily; Region: DEXDc; smart00487 171101002056 ATP binding site [chemical binding]; other site 171101002057 Mg++ binding site [ion binding]; other site 171101002058 motif III; other site 171101002059 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 171101002060 nucleotide binding region [chemical binding]; other site 171101002061 ATP-binding site [chemical binding]; other site 171101002062 S-adenosylmethionine synthetase; Validated; Region: PRK05250 171101002063 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 171101002064 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 171101002065 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 171101002066 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 171101002067 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 171101002068 active site 171101002069 FMN binding site [chemical binding]; other site 171101002070 substrate binding site [chemical binding]; other site 171101002071 catalytic residues [active] 171101002072 homodimer interface [polypeptide binding]; other site 171101002073 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 171101002074 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 171101002075 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 171101002076 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 171101002077 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 171101002078 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 171101002079 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 171101002080 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 171101002081 FeS/SAM binding site; other site 171101002082 VanZ like family; Region: VanZ; cl01971 171101002083 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 171101002084 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101002085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002086 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101002087 ABC transporter; Region: ABC_tran_2; pfam12848 171101002088 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101002089 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 171101002090 active site 171101002091 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 171101002092 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 171101002093 hypothetical protein; Provisional; Region: PRK00468; cl00794 171101002094 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 171101002095 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 171101002096 RimM N-terminal domain; Region: RimM; pfam01782 171101002097 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 171101002098 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 171101002099 ATP cone domain; Region: ATP-cone; pfam03477 171101002100 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 171101002101 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 171101002102 glutathione reductase; Validated; Region: PRK06116 171101002103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101002104 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 171101002105 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 171101002106 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 171101002107 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101002108 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101002109 Walker A/P-loop; other site 171101002110 ATP binding site [chemical binding]; other site 171101002111 Q-loop/lid; other site 171101002112 ABC transporter signature motif; other site 171101002113 Walker B; other site 171101002114 D-loop; other site 171101002115 H-loop/switch region; other site 171101002116 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 171101002117 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 171101002118 FtsX-like permease family; Region: FtsX; pfam02687 171101002119 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 171101002120 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 171101002121 active site 171101002122 HIGH motif; other site 171101002123 KMSKS motif; other site 171101002124 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 171101002125 tRNA binding surface [nucleotide binding]; other site 171101002126 anticodon binding site; other site 171101002127 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 171101002128 dimer interface [polypeptide binding]; other site 171101002129 putative tRNA-binding site [nucleotide binding]; other site 171101002130 Helix-turn-helix domains; Region: HTH; cl00088 171101002131 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 171101002132 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 171101002133 active site 171101002134 catalytic tetrad [active] 171101002135 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 171101002136 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 171101002137 classical (c) SDRs; Region: SDR_c; cd05233 171101002138 NAD(P) binding site [chemical binding]; other site 171101002139 active site 171101002140 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 171101002141 nudix motif; other site 171101002142 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101002143 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 171101002144 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 171101002145 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 171101002146 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 171101002147 Zn binding site [ion binding]; other site 171101002148 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101002149 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 171101002150 active site 171101002151 phosphorylation site [posttranslational modification] 171101002152 intermolecular recognition site; other site 171101002153 dimerization interface [polypeptide binding]; other site 171101002154 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 171101002155 DNA binding site [nucleotide binding] 171101002156 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101002157 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 171101002158 dimer interface [polypeptide binding]; other site 171101002159 phosphorylation site [posttranslational modification] 171101002160 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 171101002161 ATP binding site [chemical binding]; other site 171101002162 Mg2+ binding site [ion binding]; other site 171101002163 G-X-G motif; other site 171101002164 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 171101002165 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 171101002166 Peptidase family U32; Region: Peptidase_U32; cl03113 171101002167 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 171101002168 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 171101002169 active site 171101002170 substrate binding site [chemical binding]; other site 171101002171 catalytic site [active] 171101002172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002174 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 171101002175 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 171101002176 conserved cys residue [active] 171101002177 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 171101002178 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 171101002179 motif II; other site 171101002180 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 171101002181 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 171101002182 Mg2+ binding site [ion binding]; other site 171101002183 G-X-G motif; other site 171101002184 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 171101002185 anchoring element; other site 171101002186 dimer interface [polypeptide binding]; other site 171101002187 ATP binding site [chemical binding]; other site 171101002188 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 171101002189 active site 171101002190 putative metal-binding site [ion binding]; other site 171101002191 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 171101002192 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 171101002193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 171101002194 Integrase core domain; Region: rve; cl01316 171101002195 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 171101002196 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 171101002197 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 171101002198 nudix motif; other site 171101002199 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101002200 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 171101002201 Integrase core domain; Region: rve; cl01316 171101002202 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 171101002203 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 171101002204 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 171101002205 Walker A motif; other site 171101002206 ATP binding site [chemical binding]; other site 171101002207 Walker B motif; other site 171101002208 arginine finger; other site 171101002209 UvrB/uvrC motif; Region: UVR; pfam02151 171101002210 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 171101002211 Walker A motif; other site 171101002212 ATP binding site [chemical binding]; other site 171101002213 Walker B motif; other site 171101002214 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 171101002215 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 171101002216 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 171101002217 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 171101002218 dimer interface [polypeptide binding]; other site 171101002219 conserved gate region; other site 171101002220 putative PBP binding loops; other site 171101002221 ABC-ATPase subunit interface; other site 171101002222 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101002223 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 171101002224 Walker A/P-loop; other site 171101002225 ATP binding site [chemical binding]; other site 171101002226 Q-loop/lid; other site 171101002227 ABC transporter signature motif; other site 171101002228 Walker B; other site 171101002229 D-loop; other site 171101002230 H-loop/switch region; other site 171101002231 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 171101002232 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 171101002233 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 171101002234 homodimer interface [polypeptide binding]; other site 171101002235 NADP binding site [chemical binding]; other site 171101002236 substrate binding site [chemical binding]; other site 171101002237 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 171101002238 putative substrate binding site [chemical binding]; other site 171101002239 putative ATP binding site [chemical binding]; other site 171101002240 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 171101002241 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101002242 active site 171101002243 dimer interface [polypeptide binding]; other site 171101002244 Sulfatase; Region: Sulfatase; cl10460 171101002245 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 171101002246 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 171101002247 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 171101002248 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 becoming...; Region: Lipase; cd00741 171101002249 nucleophilic elbow; other site 171101002250 catalytic triad; other site 171101002251 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; cl12042 171101002252 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 171101002253 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 171101002254 topology modulation protein; Provisional; Region: PRK07261 171101002255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002256 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 171101002257 pantothenate kinase; Provisional; Region: PRK05439 171101002258 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 in...; Region: PanK; cd02025 171101002259 ATP-binding site [chemical binding]; other site 171101002260 CoA-binding site [chemical binding]; other site 171101002261 Mg2+-binding site [ion binding]; other site 171101002262 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 171101002263 S-adenosylmethionine binding site [chemical binding]; other site 171101002264 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 171101002265 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 171101002266 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 171101002267 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 171101002268 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 171101002269 intersubunit interface [polypeptide binding]; other site 171101002270 active site 171101002271 catalytic residue [active] 171101002272 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 171101002273 active site 171101002274 catalytic motif [active] 171101002275 Zn binding site [ion binding]; other site 171101002276 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 171101002277 ligand binding site [chemical binding]; other site 171101002278 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 171101002279 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 171101002280 Walker A/P-loop; other site 171101002281 ATP binding site [chemical binding]; other site 171101002282 Q-loop/lid; other site 171101002283 ABC transporter signature motif; other site 171101002284 Walker B; other site 171101002285 D-loop; other site 171101002286 H-loop/switch region; other site 171101002287 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 171101002288 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 171101002289 TM-ABC transporter signature motif; other site 171101002290 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 171101002291 TM-ABC transporter signature motif; other site 171101002292 Helix-turn-helix domains; Region: HTH; cl00088 171101002293 putative transposase OrfB; Reviewed; Region: PHA02517 171101002294 Integrase core domain; Region: rve; cl01316 171101002295 Domain of unknown function (DUF205); Region: DUF205; cl00410 171101002296 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 171101002297 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 171101002298 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 171101002299 anchoring element; other site 171101002300 dimer interface [polypeptide binding]; other site 171101002301 ATP binding site [chemical binding]; other site 171101002302 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 171101002303 active site 171101002304 putative metal-binding site [ion binding]; other site 171101002305 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 171101002306 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 171101002307 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 171101002308 CAP-like domain; other site 171101002309 active site 171101002310 primary dimer interface [polypeptide binding]; other site 171101002311 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101002312 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 171101002313 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 171101002314 homodimer interface [polypeptide binding]; other site 171101002315 substrate-cofactor binding pocket; other site 171101002316 catalytic residue [active] 171101002317 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 171101002318 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 171101002319 Protein of unknown function (DUF969); Region: DUF969; cl01573 171101002320 Protein of unknown function (DUF979); Region: DUF979; cl01572 171101002321 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 171101002322 putative substrate binding pocket [chemical binding]; other site 171101002323 AC domain interface; other site 171101002324 catalytic triad [active] 171101002325 AB domain interface; other site 171101002326 interchain disulfide; other site 171101002327 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 171101002328 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 171101002329 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 171101002330 RNA binding site [nucleotide binding]; other site 171101002331 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 171101002332 RNA binding site [nucleotide binding]; other site 171101002333 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 171101002334 RNA binding site [nucleotide binding]; other site 171101002335 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 171101002336 RNA binding site [nucleotide binding]; other site 171101002337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002338 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 171101002339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002340 GAF domain; Region: GAF; cl00853 171101002341 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 171101002342 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 171101002343 Walker A motif; other site 171101002344 ATP binding site [chemical binding]; other site 171101002345 Walker B motif; other site 171101002346 arginine finger; other site 171101002347 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 171101002348 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 171101002349 FeS assembly ATPase SufC; Region: sufC; TIGR01978 171101002350 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 171101002351 Walker A/P-loop; other site 171101002352 ATP binding site [chemical binding]; other site 171101002353 Q-loop/lid; other site 171101002354 ABC transporter signature motif; other site 171101002355 Walker B; other site 171101002356 D-loop; other site 171101002357 H-loop/switch region; other site 171101002358 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 171101002359 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 171101002360 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 171101002361 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 171101002362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 171101002363 catalytic residue [active] 171101002364 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 171101002365 trimerization site [polypeptide binding]; other site 171101002366 active site 171101002367 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 171101002368 FeS assembly protein SufB; Region: sufB; TIGR01980 171101002369 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 171101002370 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 171101002371 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 171101002372 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 171101002373 Domain of unknown function DUF20; Region: UPF0118; cl00465 171101002374 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 171101002375 Helix-turn-helix domains; Region: HTH; cl00088 171101002376 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 171101002377 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 171101002378 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 171101002379 putative substrate binding site [chemical binding]; other site 171101002380 putative ATP binding site [chemical binding]; other site 171101002381 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 171101002382 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 171101002383 active site 171101002384 phosphorylation site [posttranslational modification] 171101002385 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 171101002386 P-loop; other site 171101002387 active site 171101002388 phosphorylation site [posttranslational modification] 171101002389 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101002390 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 171101002391 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002392 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 171101002393 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 171101002394 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 171101002395 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 171101002396 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 171101002397 catalytic residue [active] 171101002398 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 171101002399 THUMP domain; Region: THUMP; cl12076 171101002400 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 171101002401 Ligand Binding Site [chemical binding]; other site 171101002402 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 171101002403 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 171101002404 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 171101002405 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 171101002406 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 171101002407 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 171101002408 HsdM N-terminal domain; Region: HsdM_N; pfam12161 171101002409 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 171101002410 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 171101002411 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 171101002412 ATP binding site [chemical binding]; other site 171101002413 putative Mg++ binding site [ion binding]; other site 171101002414 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002415 Arginine repressor [Transcription]; Region: ArgR; COG1438 171101002416 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 171101002417 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 171101002418 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 171101002419 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 171101002420 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 171101002421 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 171101002422 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 171101002423 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 171101002424 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 171101002425 generic binding surface II; other site 171101002426 generic binding surface I; other site 171101002427 6-phosphofructokinase; Provisional; Region: PRK03202 171101002428 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 171101002429 active site 171101002430 ADP/pyrophosphate binding site [chemical binding]; other site 171101002431 dimerization interface [polypeptide binding]; other site 171101002432 allosteric effector site; other site 171101002433 fructose-1,6-bisphosphate binding site; other site 171101002434 pyruvate kinase; Provisional; Region: PRK05826 171101002435 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 171101002436 domain interfaces; other site 171101002437 active site 171101002438 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 171101002439 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 171101002440 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 171101002441 Predicted permease; Region: DUF318; cl00487 171101002442 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 171101002443 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 171101002444 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 171101002445 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 171101002446 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 171101002447 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 171101002448 RNA binding site [nucleotide binding]; other site 171101002449 SprT homologues; Region: SprT; cl01182 171101002450 hypothetical protein; Provisional; Region: PRK04351 171101002451 PspC domain; Region: PspC; cl00864 171101002452 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101002453 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101002454 Walker A/P-loop; other site 171101002455 ATP binding site [chemical binding]; other site 171101002456 Q-loop/lid; other site 171101002457 ABC transporter signature motif; other site 171101002458 Walker B; other site 171101002459 D-loop; other site 171101002460 H-loop/switch region; other site 171101002461 FtsX-like permease family; Region: FtsX; pfam02687 171101002462 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 171101002463 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 171101002464 Integrase core domain; Region: rve; cl01316 171101002465 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 171101002466 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 171101002467 homodimer interface [polypeptide binding]; other site 171101002468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101002469 catalytic residue [active] 171101002470 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 171101002471 Transposase; Region: DEDD_Tnp_IS110; pfam01548 171101002472 spermidine synthase; Provisional; Region: PRK00811 171101002473 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 171101002474 S-adenosylmethionine binding site [chemical binding]; other site 171101002475 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 171101002476 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 171101002477 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 171101002478 dimer interface [polypeptide binding]; other site 171101002479 active site 171101002480 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101002481 catalytic residues [active] 171101002482 substrate binding site [chemical binding]; other site 171101002483 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 171101002484 agmatine deiminase; Region: agmatine_aguA; TIGR03380 171101002485 N-carbamolyputrescine amidase; Region: PLN02747 171101002486 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 171101002487 putative active site; other site 171101002488 catalytic triad [active] 171101002489 putative dimer interface [polypeptide binding]; other site 171101002490 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 171101002491 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 171101002492 active site 171101002493 motif I; other site 171101002494 motif II; other site 171101002495 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101002496 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101002497 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 171101002498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 171101002499 Helix-turn-helix domains; Region: HTH; cl00088 171101002500 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 171101002501 dimerization interface [polypeptide binding]; other site 171101002502 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 171101002503 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 171101002504 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 171101002505 RNA binding surface [nucleotide binding]; other site 171101002506 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 171101002507 active site 171101002508 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101002509 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101002510 gamma-glutamyl kinase; Provisional; Region: PRK05429 171101002511 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 171101002512 nucleotide binding site [chemical binding]; other site 171101002513 homotetrameric interface [polypeptide binding]; other site 171101002514 putative phosphate binding site [ion binding]; other site 171101002515 putative allosteric binding site; other site 171101002516 PUA domain; Region: PUA; cl00607 171101002517 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 171101002518 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 171101002519 putative catalytic cysteine [active] 171101002520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101002521 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 171101002522 thymidylate kinase; Validated; Region: tmk; PRK00698 171101002523 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 171101002524 TMP-binding site; other site 171101002525 ATP-binding site [chemical binding]; other site 171101002526 DNA polymerase III subunit delta'; Validated; Region: PRK07276 171101002527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002528 TSC-22/dip/bun family; Region: TSC22; cl01853 171101002529 Predicted methyltransferases [General function prediction only]; Region: COG0313 171101002530 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 171101002531 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 171101002532 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 171101002533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101002534 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 171101002535 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 171101002536 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 171101002537 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 171101002538 putative nucleotide binding site [chemical binding]; other site 171101002539 uridine monophosphate binding site [chemical binding]; other site 171101002540 homohexameric interface [polypeptide binding]; other site 171101002541 ribosome recycling factor; Reviewed; Region: frr; PRK00083 171101002542 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 171101002543 hinge region; other site 171101002544 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 171101002545 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 171101002546 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 171101002547 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 171101002548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002549 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 171101002550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101002551 Coenzyme A binding pocket [chemical binding]; other site 171101002552 TfoX N-terminal domain; Region: TfoX_N; cl01167 171101002553 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 171101002554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101002555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101002556 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 171101002557 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101002558 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101002559 SLBB domain; Region: SLBB; pfam10531 171101002560 comEA protein; Region: comE; TIGR01259 171101002561 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 171101002562 Competence protein; Region: Competence; cl00471 171101002563 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 171101002564 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101002565 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002566 Walker A/P-loop; other site 171101002567 ATP binding site [chemical binding]; other site 171101002568 Q-loop/lid; other site 171101002569 ABC transporter signature motif; other site 171101002570 Walker B; other site 171101002571 D-loop; other site 171101002572 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 171101002573 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 171101002574 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 171101002575 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 171101002576 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 171101002577 23S rRNA binding site [nucleotide binding]; other site 171101002578 L21 binding site [polypeptide binding]; other site 171101002579 L13 binding site [polypeptide binding]; other site 171101002580 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 171101002581 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 171101002582 dimer interface [polypeptide binding]; other site 171101002583 active site 171101002584 metal binding site [ion binding]; metal-binding site 171101002585 glutathione binding site [chemical binding]; other site 171101002586 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 171101002587 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 171101002588 FAD binding pocket [chemical binding]; other site 171101002589 FAD binding motif [chemical binding]; other site 171101002590 phosphate binding motif [ion binding]; other site 171101002591 beta-alpha-beta structure motif; other site 171101002592 NAD binding pocket [chemical binding]; other site 171101002593 Iron coordination center [ion binding]; other site 171101002594 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 171101002595 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 171101002596 heterodimer interface [polypeptide binding]; other site 171101002597 active site 171101002598 FMN binding site [chemical binding]; other site 171101002599 homodimer interface [polypeptide binding]; other site 171101002600 substrate binding site [chemical binding]; other site 171101002601 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101002602 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 171101002603 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 171101002604 Domain of unknown function (DUF814); Region: DUF814; pfam05670 171101002605 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 171101002606 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 171101002607 GTPase Era; Reviewed; Region: era; PRK00089 171101002608 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 171101002609 G1 box; other site 171101002610 GTP/Mg2+ binding site [chemical binding]; other site 171101002611 Switch I region; other site 171101002612 G2 box; other site 171101002613 Switch II region; other site 171101002614 G3 box; other site 171101002615 G4 box; other site 171101002616 G5 box; other site 171101002617 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 171101002618 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 171101002619 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 171101002620 DNA binding site [nucleotide binding] 171101002621 catalytic residue [active] 171101002622 H2TH interface [polypeptide binding]; other site 171101002623 putative catalytic residues [active] 171101002624 turnover-facilitating residue; other site 171101002625 intercalation triad [nucleotide binding]; other site 171101002626 8OG recognition residue [nucleotide binding]; other site 171101002627 putative reading head residues; other site 171101002628 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 171101002629 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 171101002630 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 171101002631 CoA-binding site [chemical binding]; other site 171101002632 ATP-binding [chemical binding]; other site 171101002633 drug efflux system protein MdtG; Provisional; Region: PRK09874 171101002634 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 171101002635 putative substrate translocation pore; other site 171101002636 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 171101002637 Preprotein translocase SecG subunit; Region: SecG; cl09123 171101002638 ribonuclease R; Region: RNase_R; TIGR02063 171101002639 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 171101002640 RNB domain; Region: RNB; pfam00773 171101002641 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 171101002642 RNA binding site [nucleotide binding]; other site 171101002643 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 171101002644 SmpB-tmRNA interface; other site 171101002645 tellurite resistance protein TehB; Provisional; Region: PRK12335 171101002646 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 171101002647 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 171101002648 S-adenosylmethionine binding site [chemical binding]; other site 171101002649 Competence protein CoiA-like family; Region: CoiA; cl11541 171101002650 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 171101002651 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 171101002652 active site 171101002653 Zn binding site [ion binding]; other site 171101002654 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 171101002655 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 171101002656 S-adenosylmethionine binding site [chemical binding]; other site 171101002657 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 171101002658 PPIC-type PPIASE domain; Region: Rotamase; cl08278 171101002659 Integrase core domain; Region: rve; cl01316 171101002660 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 171101002661 catalytic core [active] 171101002662 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 171101002663 putative deacylase active site [active] 171101002664 Domain of unknown function (DUF368); Region: DUF368; cl00893 171101002665 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 171101002666 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 171101002667 active site 171101002668 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 171101002669 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 171101002670 Substrate binding site; other site 171101002671 Mg++ binding site; other site 171101002672 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 171101002673 active site 171101002674 substrate binding site [chemical binding]; other site 171101002675 CoA binding site [chemical binding]; other site 171101002676 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 171101002677 dimer interface [polypeptide binding]; other site 171101002678 ADP-ribose binding site [chemical binding]; other site 171101002679 active site 171101002680 nudix motif; other site 171101002681 metal binding site [ion binding]; metal-binding site 171101002682 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 171101002683 Helix-turn-helix domains; Region: HTH; cl00088 171101002684 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 171101002685 active site 171101002686 substrate binding site [chemical binding]; other site 171101002687 catalytic site [active] 171101002688 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 171101002689 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 171101002690 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 171101002691 putative active site [active] 171101002692 catalytic site [active] 171101002693 putative metal binding site [ion binding]; other site 171101002694 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101002695 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 171101002696 Integrase core domain; Region: rve; cl01316 171101002697 LysE type translocator; Region: LysE; cl00565 171101002698 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 171101002699 catalytic residues [active] 171101002700 amino acid transporter; Region: 2A0306; TIGR00909 171101002701 Spore germination protein; Region: Spore_permease; cl15802 171101002702 Spore germination protein; Region: Spore_permease; cl15802 171101002703 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 171101002704 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 171101002705 metal binding site [ion binding]; metal-binding site 171101002706 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101002707 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002708 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002709 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002710 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101002711 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002712 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002713 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002714 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101002715 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002716 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002717 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002718 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101002719 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 171101002720 peptidase T; Region: peptidase-T; TIGR01882 171101002721 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 171101002722 metal binding site [ion binding]; metal-binding site 171101002723 dimer interface [polypeptide binding]; other site 171101002724 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 171101002725 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 171101002726 C-terminal domain interface [polypeptide binding]; other site 171101002727 active site 171101002728 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 171101002729 active site 171101002730 N-terminal domain interface [polypeptide binding]; other site 171101002731 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 171101002732 GtrA-like protein; Region: GtrA; cl00971 171101002733 QueT transporter; Region: QueT; cl01932 171101002734 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 171101002735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101002736 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 171101002737 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 171101002738 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 171101002739 dimer interface [polypeptide binding]; other site 171101002740 active site 171101002741 catalytic residue [active] 171101002742 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 171101002743 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 171101002744 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 171101002745 G1 box; other site 171101002746 GTP/Mg2+ binding site [chemical binding]; other site 171101002747 Switch I region; other site 171101002748 G2 box; other site 171101002749 Switch II region; other site 171101002750 G3 box; other site 171101002751 G4 box; other site 171101002752 G5 box; other site 171101002753 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 171101002754 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 171101002755 active site 1 [active] 171101002756 dimer interface [polypeptide binding]; other site 171101002757 hexamer interface [polypeptide binding]; other site 171101002758 active site 2 [active] 171101002759 Thymidine kinase; Region: TK; cl00631 171101002760 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101002761 peptide chain release factor 1; Validated; Region: prfA; PRK00591 171101002762 RF-1 domain; Region: RF-1; cl02875 171101002763 RF-1 domain; Region: RF-1; cl02875 171101002764 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 171101002765 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 171101002766 S-adenosylmethionine binding site [chemical binding]; other site 171101002767 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 171101002768 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 171101002769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101002770 Coenzyme A binding pocket [chemical binding]; other site 171101002771 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 171101002772 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 171101002773 dimer interface [polypeptide binding]; other site 171101002774 glycine-pyridoxal phosphate binding site [chemical binding]; other site 171101002775 active site 171101002776 folate binding site [chemical binding]; other site 171101002777 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 171101002778 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 171101002779 Predicted secreted protein [Function unknown]; Region: COG4086 171101002780 TRAM domain; Region: TRAM; cl01282 171101002781 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 171101002782 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 171101002783 S-adenosylmethionine binding site [chemical binding]; other site 171101002784 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 171101002785 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 171101002786 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 171101002787 siderophore binding site; other site 171101002788 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 171101002789 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 171101002790 ABC-ATPase subunit interface; other site 171101002791 dimer interface [polypeptide binding]; other site 171101002792 putative PBP binding regions; other site 171101002793 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 171101002794 ABC-ATPase subunit interface; other site 171101002795 dimer interface [polypeptide binding]; other site 171101002796 putative PBP binding regions; other site 171101002797 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 171101002798 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 171101002799 Walker A/P-loop; other site 171101002800 ATP binding site [chemical binding]; other site 171101002801 Q-loop/lid; other site 171101002802 ABC transporter signature motif; other site 171101002803 Walker B; other site 171101002804 D-loop; other site 171101002805 H-loop/switch region; other site 171101002806 Protein of unknown function (DUF1603); Region: DUF1603; pfam07674 171101002807 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 171101002808 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 171101002809 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 171101002810 catalytic residues [active] 171101002811 catalytic nucleophile [active] 171101002812 Recombinase; Region: Recombinase; pfam07508 171101002813 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 171101002814 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 171101002815 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 171101002816 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 171101002817 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 171101002818 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 171101002819 homodimer interface [polypeptide binding]; other site 171101002820 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 171101002821 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 171101002822 active site 171101002823 homodimer interface [polypeptide binding]; other site 171101002824 catalytic site [active] 171101002825 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101002826 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 171101002827 non-specific DNA binding site [nucleotide binding]; other site 171101002828 salt bridge; other site 171101002829 sequence-specific DNA binding site [nucleotide binding]; other site 171101002830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002832 ABC transporter signature motif; other site 171101002833 Walker B; other site 171101002834 D-loop; other site 171101002835 H-loop/switch region; other site 171101002836 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 171101002837 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 171101002838 Lantibiotic streptin immunity protein; Region: Streptin-Immun; pfam11083 171101002839 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 171101002840 non-specific DNA binding site [nucleotide binding]; other site 171101002841 salt bridge; other site 171101002842 sequence-specific DNA binding site [nucleotide binding]; other site 171101002843 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101002844 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 171101002845 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101002846 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 171101002847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101002848 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 171101002849 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 171101002850 Metal-binding active site; metal-binding site 171101002851 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 171101002852 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 171101002853 trimer interface [polypeptide binding]; other site 171101002854 active site 171101002855 substrate binding site [chemical binding]; other site 171101002856 CoA binding site [chemical binding]; other site 171101002857 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 171101002858 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 171101002859 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 171101002860 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 attaches...; Region: class_II_aaRS-like_core; cl00268 171101002861 motif 1; other site 171101002862 dimer interface [polypeptide binding]; other site 171101002863 active site 171101002864 motif 2; other site 171101002865 motif 3; other site 171101002866 argininosuccinate lyase; Provisional; Region: PRK02186 171101002867 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 171101002868 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 171101002869 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 171101002870 putative trimer interface [polypeptide binding]; other site 171101002871 putative CoA binding site [chemical binding]; other site 171101002872 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101002873 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 171101002874 putative substrate translocation pore; other site 171101002875 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 171101002876 sequence-specific DNA binding site [nucleotide binding]; other site 171101002877 salt bridge; other site 171101002878 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 171101002879 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 171101002880 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 171101002881 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 171101002882 zinc binding site [ion binding]; other site 171101002883 putative ligand binding site [chemical binding]; other site 171101002884 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 171101002885 TM-ABC transporter signature motif; other site 171101002886 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 171101002887 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002888 Walker A/P-loop; other site 171101002889 ATP binding site [chemical binding]; other site 171101002890 Q-loop/lid; other site 171101002891 ABC transporter signature motif; other site 171101002892 Walker B; other site 171101002893 D-loop; other site 171101002894 H-loop/switch region; other site 171101002895 DNA primase; Validated; Region: dnaG; PRK05667 171101002896 CHC2 zinc finger; Region: zf-CHC2; cl15369 171101002897 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 171101002898 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 171101002899 active site 171101002900 metal binding site [ion binding]; metal-binding site 171101002901 interdomain interaction site; other site 171101002902 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 171101002903 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 171101002904 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 171101002905 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 171101002906 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 171101002907 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 171101002908 DNA binding residues [nucleotide binding] 171101002909 Domain of unknown function DUF59; Region: DUF59; cl00941 171101002910 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 171101002911 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 171101002912 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 171101002913 putative ADP-binding pocket [chemical binding]; other site 171101002914 PspC domain; Region: PspC; cl00864 171101002915 GTPase CgtA; Reviewed; Region: obgE; PRK12297 171101002916 GTP1/OBG; Region: GTP1_OBG; pfam01018 171101002917 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 171101002918 G1 box; other site 171101002919 GTP/Mg2+ binding site [chemical binding]; other site 171101002920 Switch I region; other site 171101002921 G2 box; other site 171101002922 G3 box; other site 171101002923 Switch II region; other site 171101002924 G4 box; other site 171101002925 G5 box; other site 171101002926 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 171101002927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002928 Transposase; Region: DDE_Tnp_ISL3; pfam01610 171101002929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002930 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 171101002931 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 171101002932 hinge; other site 171101002933 active site 171101002934 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101002935 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101002936 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 171101002937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101002938 DNA-binding site [nucleotide binding]; DNA binding site 171101002939 DRTGG domain; Region: DRTGG; cl12147 171101002940 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 171101002941 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 171101002942 active site 2 [active] 171101002943 active site 1 [active] 171101002944 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 171101002945 active site 171101002946 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 171101002947 Transposase domain (DUF772); Region: DUF772; cl15789 171101002948 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 171101002949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101002950 hypothetical protein; Reviewed; Region: PRK00024 171101002951 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 171101002952 MPN+ (JAMM) motif; other site 171101002953 Zinc-binding site [ion binding]; other site 171101002954 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 171101002955 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 171101002956 catalytic triad [active] 171101002957 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 171101002958 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 171101002959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101002960 Putative amino acid metabolism; Region: DUF1831; pfam08866 171101002961 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 171101002962 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 171101002963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 171101002964 catalytic residue [active] 171101002965 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 171101002966 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101002967 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 171101002968 putative active site [active] 171101002969 putative metal binding residues [ion binding]; other site 171101002970 signature motif; other site 171101002971 putative triphosphate binding site [ion binding]; other site 171101002972 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 171101002973 synthetase active site [active] 171101002974 NTP binding site [chemical binding]; other site 171101002975 metal binding site [ion binding]; metal-binding site 171101002976 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 171101002977 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 171101002978 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 171101002979 RNA binding surface [nucleotide binding]; other site 171101002980 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 171101002981 active site 171101002982 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 171101002983 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 171101002984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002985 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002986 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 171101002987 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 171101002988 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 171101002989 Protein of unknown function (DUF464); Region: DUF464; cl01080 171101002990 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 171101002991 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 171101002992 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 171101002993 active site 171101002994 Riboflavin kinase; Region: Flavokinase; cl03312 171101002995 Uncharacterized conserved protein [Function unknown]; Region: COG1284 171101002996 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101002997 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101002998 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 171101002999 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 171101003000 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 171101003001 IHF dimer interface [polypeptide binding]; other site 171101003002 IHF - DNA interface [nucleotide binding]; other site 171101003003 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 171101003004 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101003005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003006 Q-loop/lid; other site 171101003007 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101003008 ABC transporter signature motif; other site 171101003009 Walker B; other site 171101003010 D-loop; other site 171101003011 ABC transporter; Region: ABC_tran_2; pfam12848 171101003012 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101003013 Helix-turn-helix domains; Region: HTH; cl00088 171101003014 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101003015 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101003016 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 171101003017 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 171101003018 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 171101003019 nucleotide binding pocket [chemical binding]; other site 171101003020 K-X-D-G motif; other site 171101003021 catalytic site [active] 171101003022 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 171101003023 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 171101003024 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 171101003025 Dimer interface [polypeptide binding]; other site 171101003026 BRCT sequence motif; other site 171101003027 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 171101003028 pullulanase, type I; Region: pulA_typeI; TIGR02104 171101003029 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 171101003030 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 171101003031 Ca binding site [ion binding]; other site 171101003032 active site 171101003033 catalytic site [active] 171101003034 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 171101003035 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 171101003036 tetrameric interface [polypeptide binding]; other site 171101003037 activator binding site; other site 171101003038 NADP binding site [chemical binding]; other site 171101003039 substrate binding site [chemical binding]; other site 171101003040 catalytic residues [active] 171101003041 glycogen branching enzyme; Provisional; Region: PRK12313 171101003042 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 171101003043 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 171101003044 active site 171101003045 catalytic site [active] 171101003046 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 171101003047 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 171101003048 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 171101003049 ligand binding site; other site 171101003050 oligomer interface; other site 171101003051 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 171101003052 dimer interface [polypeptide binding]; other site 171101003053 N-terminal domain interface [polypeptide binding]; other site 171101003054 sulfate 1 binding site; other site 171101003055 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 171101003056 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 171101003057 active site 171101003058 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 171101003059 dimer interface [polypeptide binding]; other site 171101003060 N-terminal domain interface [polypeptide binding]; other site 171101003061 sulfate 1 binding site; other site 171101003062 glycogen synthase; Provisional; Region: glgA; PRK00654 171101003063 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 171101003064 ADP-binding pocket [chemical binding]; other site 171101003065 homodimer interface [polypeptide binding]; other site 171101003066 phosphoserine phosphatase SerB; Region: serB; TIGR00338 171101003067 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101003068 Glycerate kinase family; Region: Gly_kinase; cl00841 171101003069 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 171101003070 enolase; Provisional; Region: eno; PRK00077 171101003071 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 171101003072 dimer interface [polypeptide binding]; other site 171101003073 metal binding site [ion binding]; metal-binding site 171101003074 substrate binding pocket [chemical binding]; other site 171101003075 Integrase core domain; Region: rve; cl01316 171101003076 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101003077 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 171101003078 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 171101003079 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 171101003080 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 171101003081 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 171101003082 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 171101003083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003084 Family description; Region: UvrD_C_2; cl15862 171101003085 Family description; Region: UvrD_C_2; cl15862 171101003086 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 171101003087 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101003088 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 171101003089 G5 domain; Region: G5; pfam07501 171101003090 ribonuclease E; Reviewed; Region: rne; PRK10811 171101003091 sporozoite surface protein 2 (SSP2); Provisional; Region: PTZ00441 171101003092 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 171101003093 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 171101003094 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 171101003095 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 171101003096 GTP/Mg2+ binding site [chemical binding]; other site 171101003097 G4 box; other site 171101003098 G5 box; other site 171101003099 G1 box; other site 171101003100 Switch I region; other site 171101003101 G2 box; other site 171101003102 G3 box; other site 171101003103 Switch II region; other site 171101003104 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 171101003105 RNA/DNA hybrid binding site [nucleotide binding]; other site 171101003106 active site 171101003107 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 171101003108 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 171101003109 Cl- selectivity filter; other site 171101003110 Cl- binding residues [ion binding]; other site 171101003111 pore gating glutamate residue; other site 171101003112 dimer interface [polypeptide binding]; other site 171101003113 H+/Cl- coupling transport residue; other site 171101003114 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; cl15357 171101003115 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 171101003116 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 171101003117 DNA binding site [nucleotide binding] 171101003118 Int/Topo IB signature motif; other site 171101003119 active site 171101003120 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 171101003121 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 171101003122 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 171101003123 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 171101003124 E3 interaction surface; other site 171101003125 lipoyl attachment site [posttranslational modification]; other site 171101003126 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 171101003127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101003128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101003129 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 171101003130 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 171101003131 e3 binding domain; Region: E3_binding; pfam02817 171101003132 e3 binding domain; Region: E3_binding; pfam02817 171101003133 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 171101003134 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 171101003135 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 171101003136 alpha subunit interface [polypeptide binding]; other site 171101003137 TPP binding site [chemical binding]; other site 171101003138 heterodimer interface [polypeptide binding]; other site 171101003139 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 171101003140 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 171101003141 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 171101003142 tetramer interface [polypeptide binding]; other site 171101003143 TPP-binding site [chemical binding]; other site 171101003144 heterodimer interface [polypeptide binding]; other site 171101003145 phosphorylation loop region [posttranslational modification] 171101003146 multidrug efflux protein; Reviewed; Region: PRK01766 171101003147 MatE; Region: MatE; cl10513 171101003148 MatE; Region: MatE; cl10513 171101003149 dihydroorotase; Validated; Region: pyrC; PRK09357 171101003150 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 171101003151 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 171101003152 active site 171101003153 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 171101003154 putative active site [active] 171101003155 nucleotide binding site [chemical binding]; other site 171101003156 nudix motif; other site 171101003157 putative metal binding site [ion binding]; other site 171101003158 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 171101003159 ligand binding site [chemical binding]; other site 171101003160 active site 171101003161 UGI interface [polypeptide binding]; other site 171101003162 catalytic site [active] 171101003163 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 171101003164 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 171101003165 motif II; other site 171101003166 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 171101003167 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 171101003168 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101003169 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003170 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003171 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003172 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101003173 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003174 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003175 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101003176 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003177 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 171101003178 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 171101003179 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 171101003180 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 171101003181 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 171101003182 dimerization domain swap beta strand [polypeptide binding]; other site 171101003183 regulatory protein interface [polypeptide binding]; other site 171101003184 active site 171101003185 regulatory phosphorylation site [posttranslational modification]; other site 171101003186 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 171101003187 catalytic residues [active] 171101003188 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 171101003189 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 171101003190 Class I ribonucleotide reductase; Region: RNR_I; cd01679 171101003191 active site 171101003192 dimer interface [polypeptide binding]; other site 171101003193 catalytic residues [active] 171101003194 effector binding site; other site 171101003195 R2 peptide binding site; other site 171101003196 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 171101003197 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 171101003198 dimer interface [polypeptide binding]; other site 171101003199 putative radical transfer pathway; other site 171101003200 diiron center [ion binding]; other site 171101003201 tyrosyl radical; other site 171101003202 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 171101003203 Helix-turn-helix domains; Region: HTH; cl00088 171101003204 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 171101003205 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101003206 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101003207 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 171101003208 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 171101003209 P-loop; other site 171101003210 active site 171101003211 phosphorylation site [posttranslational modification] 171101003212 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 171101003213 methionine cluster; other site 171101003214 active site 171101003215 phosphorylation site [posttranslational modification] 171101003216 metal binding site [ion binding]; metal-binding site 171101003217 CAT RNA binding domain; Region: CAT_RBD; cl03904 171101003218 transcriptional antiterminator BglG; Provisional; Region: PRK09772 171101003219 PRD domain; Region: PRD; cl15445 171101003220 PRD domain; Region: PRD; cl15445 171101003221 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 171101003222 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 171101003223 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 171101003224 putative substrate binding site [chemical binding]; other site 171101003225 putative ATP binding site [chemical binding]; other site 171101003226 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 171101003227 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 171101003228 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 171101003229 catalytic residues [active] 171101003230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101003231 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 171101003232 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 171101003233 P-loop; other site 171101003234 active site 171101003235 phosphorylation site [posttranslational modification] 171101003236 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 171101003237 active site 171101003238 phosphorylation site [posttranslational modification] 171101003239 GTP-binding protein LepA; Provisional; Region: PRK05433 171101003240 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 171101003241 G1 box; other site 171101003242 putative GEF interaction site [polypeptide binding]; other site 171101003243 GTP/Mg2+ binding site [chemical binding]; other site 171101003244 Switch I region; other site 171101003245 G2 box; other site 171101003246 G3 box; other site 171101003247 Switch II region; other site 171101003248 G4 box; other site 171101003249 G5 box; other site 171101003250 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 171101003251 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 171101003252 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 171101003253 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 171101003254 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 171101003255 active site 171101003256 metal binding site [ion binding]; metal-binding site 171101003257 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 171101003258 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 171101003259 Walker A/P-loop; other site 171101003260 ATP binding site [chemical binding]; other site 171101003261 Q-loop/lid; other site 171101003262 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 171101003263 ABC transporter signature motif; other site 171101003264 Walker B; other site 171101003265 D-loop; other site 171101003266 H-loop/switch region; other site 171101003267 Arginine repressor [Transcription]; Region: ArgR; COG1438 171101003268 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 171101003269 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 171101003270 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 171101003271 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 171101003272 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101003273 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 171101003274 substrate binding pocket [chemical binding]; other site 171101003275 chain length determination region; other site 171101003276 substrate-Mg2+ binding site; other site 171101003277 catalytic residues [active] 171101003278 aspartate-rich region 1; other site 171101003279 active site lid residues [active] 171101003280 aspartate-rich region 2; other site 171101003281 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 171101003282 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 171101003283 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 171101003284 generic binding surface II; other site 171101003285 generic binding surface I; other site 171101003286 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 171101003287 Sugar specificity; other site 171101003288 Pyrimidine base specificity; other site 171101003289 ATP-binding site [chemical binding]; other site 171101003290 Enterocin A Immunity; Region: EntA_Immun; pfam08951 171101003291 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 171101003292 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 171101003293 RNA binding site [nucleotide binding]; other site 171101003294 active site 171101003295 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 171101003296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 171101003297 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 171101003298 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 171101003299 hypothetical protein; Provisional; Region: PRK05939 171101003300 homodimer interface [polypeptide binding]; other site 171101003301 substrate-cofactor binding pocket; other site 171101003302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101003303 catalytic residue [active] 171101003304 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 171101003305 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 171101003306 Sortase A (SrtA) or subfamily-1 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...; Region: Sortase_A_1; cd06165 171101003307 active site 171101003308 catalytic site [active] 171101003309 DNA gyrase subunit A; Validated; Region: PRK05560 171101003310 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 171101003311 CAP-like domain; other site 171101003312 active site 171101003313 primary dimer interface [polypeptide binding]; other site 171101003314 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003315 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003316 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003317 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003318 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003319 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003320 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 171101003321 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 171101003322 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101003323 NAD binding site [chemical binding]; other site 171101003324 dimer interface [polypeptide binding]; other site 171101003325 substrate binding site [chemical binding]; other site 171101003326 T5orf172 domain; Region: T5orf172; cl11176 171101003327 DEAD-like helicases superfamily; Region: DEXDc; smart00487 171101003328 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 171101003329 Domain of unknown function (DUF947); Region: DUF947; pfam06102 171101003330 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101003331 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 171101003332 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101003333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 171101003334 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 171101003335 putative active site [active] 171101003336 heme pocket [chemical binding]; other site 171101003337 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 171101003338 dimer interface [polypeptide binding]; other site 171101003339 phosphorylation site [posttranslational modification] 171101003340 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 171101003341 ATP binding site [chemical binding]; other site 171101003342 Mg2+ binding site [ion binding]; other site 171101003343 G-X-G motif; other site 171101003344 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101003345 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 171101003346 active site 171101003347 phosphorylation site [posttranslational modification] 171101003348 intermolecular recognition site; other site 171101003349 dimerization interface [polypeptide binding]; other site 171101003350 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 171101003351 DNA binding site [nucleotide binding] 171101003352 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 171101003353 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 171101003354 minor groove reading motif; other site 171101003355 helix-hairpin-helix signature motif; other site 171101003356 substrate binding pocket [chemical binding]; other site 171101003357 active site 171101003358 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 171101003359 DNA binding and oxoG recognition site [nucleotide binding] 171101003360 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 171101003361 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 171101003362 Potassium binding sites [ion binding]; other site 171101003363 Cesium cation binding sites [ion binding]; other site 171101003364 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 171101003365 Flavoprotein; Region: Flavoprotein; cl08021 171101003366 Predicted membrane protein [Function unknown]; Region: COG4684 171101003367 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 171101003368 Helix-turn-helix domains; Region: HTH; cl00088 171101003369 3H domain; Region: 3H; pfam02829 171101003370 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 171101003371 putative active site [active] 171101003372 nucleotide binding site [chemical binding]; other site 171101003373 nudix motif; other site 171101003374 putative metal binding site [ion binding]; other site 171101003375 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 171101003376 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101003377 Coenzyme A binding pocket [chemical binding]; other site 171101003378 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101003379 excinuclease ABC subunit B; Provisional; Region: PRK05298 171101003380 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 171101003381 ATP binding site [chemical binding]; other site 171101003382 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 171101003383 nucleotide binding region [chemical binding]; other site 171101003384 ATP-binding site [chemical binding]; other site 171101003385 Ultra-violet resistance protein B; Region: UvrB; pfam12344 171101003386 UvrB/uvrC motif; Region: UVR; pfam02151 171101003387 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101003388 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 171101003389 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101003390 substrate binding pocket [chemical binding]; other site 171101003391 membrane-bound complex binding site; other site 171101003392 hinge residues; other site 171101003393 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 171101003394 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101003395 substrate binding pocket [chemical binding]; other site 171101003396 membrane-bound complex binding site; other site 171101003397 hinge residues; other site 171101003398 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 171101003399 dimer interface [polypeptide binding]; other site 171101003400 conserved gate region; other site 171101003401 putative PBP binding loops; other site 171101003402 ABC-ATPase subunit interface; other site 171101003403 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101003404 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 171101003405 Walker A/P-loop; other site 171101003406 ATP binding site [chemical binding]; other site 171101003407 Q-loop/lid; other site 171101003408 ABC transporter signature motif; other site 171101003409 Walker B; other site 171101003410 D-loop; other site 171101003411 H-loop/switch region; other site 171101003412 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 171101003413 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 171101003414 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 171101003415 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 171101003416 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 171101003417 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 171101003418 P loop; other site 171101003419 GTP binding site [chemical binding]; other site 171101003420 sugar phosphate phosphatase; Provisional; Region: PRK10513 171101003421 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 171101003422 motif II; other site 171101003423 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101003424 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 171101003425 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 171101003426 active site 171101003427 motif I; other site 171101003428 motif II; other site 171101003429 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101003430 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 171101003431 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 171101003432 Walker A/P-loop; other site 171101003433 ATP binding site [chemical binding]; other site 171101003434 Q-loop/lid; other site 171101003435 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 171101003436 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 171101003437 ABC transporter signature motif; other site 171101003438 Walker B; other site 171101003439 D-loop; other site 171101003440 H-loop/switch region; other site 171101003441 ribonuclease III; Reviewed; Region: rnc; PRK00102 171101003442 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 171101003443 dimerization interface [polypeptide binding]; other site 171101003444 active site 171101003445 metal binding site [ion binding]; metal-binding site 171101003446 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 171101003447 dsRNA binding site [nucleotide binding]; other site 171101003448 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 171101003449 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 171101003450 active site 171101003451 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 171101003452 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 171101003453 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 171101003454 Walker A motif; other site 171101003455 ATP binding site [chemical binding]; other site 171101003456 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 171101003457 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 171101003458 substrate binding site [chemical binding]; other site 171101003459 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 171101003460 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 171101003461 tartrate dehydrogenase; Provisional; Region: PRK08194 171101003462 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 171101003463 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 171101003464 homocitrate synthase; Region: LysS_fung_arch; TIGR02146 171101003465 metal binding site [ion binding]; metal-binding site 171101003466 Protein of unknown function (DUF419); Region: DUF419; cl15265 171101003467 CutC family; Region: CutC; cl01218 171101003468 Protein of unknown function (DUF454); Region: DUF454; cl01063 171101003469 DNA topoisomerase I; Validated; Region: PRK05582 171101003470 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 171101003471 active site 171101003472 interdomain interaction site; other site 171101003473 putative metal-binding site [ion binding]; other site 171101003474 nucleotide binding site [chemical binding]; other site 171101003475 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 171101003476 domain I; other site 171101003477 DNA binding groove [nucleotide binding] 171101003478 phosphate binding site [ion binding]; other site 171101003479 domain II; other site 171101003480 domain III; other site 171101003481 nucleotide binding site [chemical binding]; other site 171101003482 catalytic site [active] 171101003483 domain IV; other site 171101003484 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 171101003485 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 171101003486 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 171101003487 Domain of unknown function (DUF389); Region: DUF389; cl00781 171101003488 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 171101003489 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 171101003490 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 171101003491 active site 171101003492 metal-binding site 171101003493 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 171101003494 active site 171101003495 substrate binding site [chemical binding]; other site 171101003496 ATP binding site [chemical binding]; other site 171101003497 dimer interface [polypeptide binding]; other site 171101003498 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 171101003499 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 171101003500 putative NAD(P) binding site [chemical binding]; other site 171101003501 putative catalytic Zn binding site [ion binding]; other site 171101003502 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 171101003503 substrate binding site; other site 171101003504 dimer interface; other site 171101003505 MatE; Region: MatE; cl10513 171101003506 LicD family; Region: LicD; cl01378 171101003507 LicD family; Region: LicD; cl01378 171101003508 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 171101003509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 171101003510 ATP-grasp domain; Region: ATP-grasp_4; cl03087 171101003511 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 171101003512 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 171101003513 ATP-grasp domain; Region: ATP-grasp_4; cl03087 171101003514 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 171101003515 IMP binding site; other site 171101003516 dimer interface [polypeptide binding]; other site 171101003517 interdomain contacts; other site 171101003518 partial ornithine binding site; other site 171101003519 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 171101003520 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 171101003521 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 171101003522 catalytic site [active] 171101003523 subunit interface [polypeptide binding]; other site 171101003524 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 171101003525 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 171101003526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101003527 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101003528 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 171101003529 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 171101003530 minor groove reading motif; other site 171101003531 helix-hairpin-helix signature motif; other site 171101003532 substrate binding pocket [chemical binding]; other site 171101003533 active site 171101003534 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 171101003535 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 171101003536 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101003537 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101003538 Peptidase family M48; Region: Peptidase_M48; cl12018 171101003539 LemA family; Region: LemA; cl00742 171101003540 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 171101003541 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 171101003542 S-adenosylmethionine binding site [chemical binding]; other site 171101003543 Permease family; Region: Xan_ur_permease; cl00967 171101003544 signal recognition particle protein; Provisional; Region: PRK10867 171101003545 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 171101003546 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 171101003547 P loop; other site 171101003548 GTP binding site [chemical binding]; other site 171101003549 Signal peptide binding domain; Region: SRP_SPB; pfam02978 171101003550 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; cl15358 171101003551 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 171101003552 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 171101003553 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 171101003554 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 171101003555 Zn2+ binding site [ion binding]; other site 171101003556 Mg2+ binding site [ion binding]; other site 171101003557 sugar phosphate phosphatase; Provisional; Region: PRK10513 171101003558 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 171101003559 active site 171101003560 motif I; other site 171101003561 motif II; other site 171101003562 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101003563 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 171101003564 CrcB-like protein; Region: CRCB; cl09114 171101003565 CrcB-like protein; Region: CRCB; cl09114 171101003566 Chorismate mutase type II; Region: CM_2; cl00693 171101003567 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 171101003568 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 171101003569 DHH family; Region: DHH; pfam01368 171101003570 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 171101003571 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 171101003572 Winged helix-turn helix; Region: HTH_33; pfam13592 171101003573 glutamate dehydrogenase; Provisional; Region: PRK09414 171101003574 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 171101003575 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 171101003576 NAD(P) binding site [chemical binding]; other site 171101003577 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 171101003578 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003579 Walker A/P-loop; other site 171101003580 ATP binding site [chemical binding]; other site 171101003581 Q-loop/lid; other site 171101003582 ABC transporter signature motif; other site 171101003583 Walker B; other site 171101003584 D-loop; other site 171101003585 H-loop/switch region; other site 171101003586 Transposase domain (DUF772); Region: DUF772; cl15789 171101003587 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101003588 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 171101003589 catalytic residue [active] 171101003590 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 171101003591 active site 171101003592 catalytic motif [active] 171101003593 Zn binding site [ion binding]; other site 171101003594 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 171101003595 tetramer interfaces [polypeptide binding]; other site 171101003596 binuclear metal-binding site [ion binding]; other site 171101003597 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 171101003598 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 171101003599 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 171101003600 Walker A/P-loop; other site 171101003601 ATP binding site [chemical binding]; other site 171101003602 Q-loop/lid; other site 171101003603 ABC transporter signature motif; other site 171101003604 Walker B; other site 171101003605 D-loop; other site 171101003606 H-loop/switch region; other site 171101003607 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 171101003608 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 171101003609 Walker A/P-loop; other site 171101003610 ATP binding site [chemical binding]; other site 171101003611 Q-loop/lid; other site 171101003612 ABC transporter signature motif; other site 171101003613 Walker B; other site 171101003614 D-loop; other site 171101003615 H-loop/switch region; other site 171101003616 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 171101003617 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 171101003618 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 171101003619 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 171101003620 dimer interface [polypeptide binding]; other site 171101003621 conserved gate region; other site 171101003622 putative PBP binding loops; other site 171101003623 ABC-ATPase subunit interface; other site 171101003624 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 171101003625 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 171101003626 dimer interface [polypeptide binding]; other site 171101003627 conserved gate region; other site 171101003628 putative PBP binding loops; other site 171101003629 ABC-ATPase subunit interface; other site 171101003630 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 171101003631 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 171101003632 cyclically-permuted mutatrotase family protein; Region: mutarot_permut; TIGR03548 171101003633 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 171101003634 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 171101003635 putative active site cavity [active] 171101003636 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101003637 Integrase core domain; Region: rve; cl01316 171101003638 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101003639 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101003640 Walker A/P-loop; other site 171101003641 ATP binding site [chemical binding]; other site 171101003642 Q-loop/lid; other site 171101003643 ABC transporter signature motif; other site 171101003644 Walker B; other site 171101003645 D-loop; other site 171101003646 H-loop/switch region; other site 171101003647 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003648 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101003649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003650 Walker A/P-loop; other site 171101003651 ATP binding site [chemical binding]; other site 171101003652 Q-loop/lid; other site 171101003653 ABC transporter signature motif; other site 171101003654 Walker B; other site 171101003655 D-loop; other site 171101003656 H-loop/switch region; other site 171101003657 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 171101003658 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 171101003659 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 171101003660 active site 171101003661 ATP binding site [chemical binding]; other site 171101003662 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 171101003663 active site 171101003664 zinc binding site [ion binding]; other site 171101003665 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101003666 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 171101003667 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 171101003668 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 171101003669 core dimer interface [polypeptide binding]; other site 171101003670 L10 interface [polypeptide binding]; other site 171101003671 L11 interface [polypeptide binding]; other site 171101003672 putative EF-Tu interaction site [polypeptide binding]; other site 171101003673 putative EF-G interaction site [polypeptide binding]; other site 171101003674 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 171101003675 23S rRNA interface [nucleotide binding]; other site 171101003676 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 171101003677 chlorohydrolase; Validated; Region: PRK06687 171101003678 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 171101003679 active site 171101003680 putative substrate binding pocket [chemical binding]; other site 171101003681 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003682 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101003683 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 171101003684 Walker A/P-loop; other site 171101003685 ATP binding site [chemical binding]; other site 171101003686 Q-loop/lid; other site 171101003687 ABC transporter signature motif; other site 171101003688 Walker B; other site 171101003689 D-loop; other site 171101003690 H-loop/switch region; other site 171101003691 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003692 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101003693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003694 Walker A/P-loop; other site 171101003695 ATP binding site [chemical binding]; other site 171101003696 Q-loop/lid; other site 171101003697 ABC transporter signature motif; other site 171101003698 Walker B; other site 171101003699 D-loop; other site 171101003700 H-loop/switch region; other site 171101003701 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 171101003702 SelR domain; Region: SelR; cl00369 171101003703 homoserine kinase; Provisional; Region: PRK01212 171101003704 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 171101003705 homoserine dehydrogenase; Provisional; Region: PRK06349 171101003706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101003707 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 171101003708 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 171101003709 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 171101003710 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 171101003711 putative glycosyl transferase; Provisional; Region: PRK10073 171101003712 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 171101003713 active site 171101003714 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 171101003715 putative ADP-binding pocket [chemical binding]; other site 171101003716 LicD family; Region: LicD; cl01378 171101003717 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 171101003718 prephenate dehydratase; Provisional; Region: PRK11898 171101003719 Prephenate dehydratase; Region: PDT; pfam00800 171101003720 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 171101003721 putative L-Phe binding site [chemical binding]; other site 171101003722 shikimate kinase; Reviewed; Region: aroK; PRK00131 171101003723 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 171101003724 ADP binding site [chemical binding]; other site 171101003725 magnesium binding site [ion binding]; other site 171101003726 putative shikimate binding site; other site 171101003727 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 171101003728 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 171101003729 hinge; other site 171101003730 active site 171101003731 Protein of unknown function (DUF964); Region: DUF964; cl01483 171101003732 prephenate dehydrogenase; Validated; Region: PRK06545 171101003733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101003734 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 171101003735 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 171101003736 Tetramer interface [polypeptide binding]; other site 171101003737 active site 171101003738 FMN-binding site [chemical binding]; other site 171101003739 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 171101003740 active site 171101003741 dimer interface [polypeptide binding]; other site 171101003742 metal binding site [ion binding]; metal-binding site 171101003743 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 171101003744 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 171101003745 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 171101003746 shikimate binding site; other site 171101003747 NAD(P) binding site [chemical binding]; other site 171101003748 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 171101003749 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 171101003750 active site 171101003751 catalytic residue [active] 171101003752 dimer interface [polypeptide binding]; other site 171101003753 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 171101003754 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101003755 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 171101003756 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 171101003757 Walker A/P-loop; other site 171101003758 ATP binding site [chemical binding]; other site 171101003759 Q-loop/lid; other site 171101003760 ABC transporter signature motif; other site 171101003761 Walker B; other site 171101003762 D-loop; other site 171101003763 H-loop/switch region; other site 171101003764 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 171101003765 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 171101003766 active site 171101003767 Na/Ca binding site [ion binding]; other site 171101003768 catalytic site [active] 171101003769 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 171101003770 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 171101003771 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 171101003772 motif 1; other site 171101003773 active site 171101003774 motif 2; other site 171101003775 motif 3; other site 171101003776 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 171101003777 DHHA1 domain; Region: DHHA1; pfam02272 171101003778 Scramblase; Region: Scramblase; cl02043 171101003779 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 171101003780 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101003781 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 171101003782 dimer interface [polypeptide binding]; other site 171101003783 conserved gate region; other site 171101003784 putative PBP binding loops; other site 171101003785 ABC-ATPase subunit interface; other site 171101003786 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 171101003787 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 171101003788 dimer interface [polypeptide binding]; other site 171101003789 conserved gate region; other site 171101003790 putative PBP binding loops; other site 171101003791 ABC-ATPase subunit interface; other site 171101003792 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 171101003793 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 171101003794 Walker A/P-loop; other site 171101003795 ATP binding site [chemical binding]; other site 171101003796 Q-loop/lid; other site 171101003797 ABC transporter signature motif; other site 171101003798 Walker B; other site 171101003799 D-loop; other site 171101003800 H-loop/switch region; other site 171101003801 TOBE domain; Region: TOBE_2; cl01440 171101003802 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 171101003803 FAD binding domain; Region: FAD_binding_4; pfam01565 171101003804 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 171101003805 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 171101003806 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 171101003807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101003808 DNA-binding site [nucleotide binding]; DNA binding site 171101003809 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 171101003810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101003811 homodimer interface [polypeptide binding]; other site 171101003812 catalytic residue [active] 171101003813 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 171101003814 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101003815 substrate binding pocket [chemical binding]; other site 171101003816 membrane-bound complex binding site; other site 171101003817 hinge residues; other site 171101003818 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 171101003819 PhoU domain; Region: PhoU; pfam01895 171101003820 PhoU domain; Region: PhoU; pfam01895 171101003821 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 171101003822 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 171101003823 Walker A/P-loop; other site 171101003824 ATP binding site [chemical binding]; other site 171101003825 Q-loop/lid; other site 171101003826 ABC transporter signature motif; other site 171101003827 Walker B; other site 171101003828 D-loop; other site 171101003829 H-loop/switch region; other site 171101003830 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 171101003831 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 171101003832 Walker A/P-loop; other site 171101003833 ATP binding site [chemical binding]; other site 171101003834 Q-loop/lid; other site 171101003835 ABC transporter signature motif; other site 171101003836 Walker B; other site 171101003837 D-loop; other site 171101003838 H-loop/switch region; other site 171101003839 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 171101003840 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 171101003841 dimer interface [polypeptide binding]; other site 171101003842 conserved gate region; other site 171101003843 putative PBP binding loops; other site 171101003844 ABC-ATPase subunit interface; other site 171101003845 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 171101003846 dimer interface [polypeptide binding]; other site 171101003847 conserved gate region; other site 171101003848 putative PBP binding loops; other site 171101003849 ABC-ATPase subunit interface; other site 171101003850 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101003851 Uncharacterized conserved protein [Function unknown]; Region: COG3270 171101003852 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 171101003853 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 171101003854 S-adenosylmethionine binding site [chemical binding]; other site 171101003855 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 171101003856 active site 171101003857 Uncharacterised protein family (UPF0223); Region: UPF0223; cl11484 171101003858 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 171101003859 ArsC family; Region: ArsC; pfam03960 171101003860 putative catalytic residues [active] 171101003861 thiol/disulfide switch; other site 171101003862 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 171101003863 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 171101003864 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 171101003865 active site 171101003866 motif I; other site 171101003867 motif II; other site 171101003868 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 171101003869 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 171101003870 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 171101003871 active site 171101003872 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 171101003873 active site 171101003874 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 171101003875 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 171101003876 FeS/SAM binding site; other site 171101003877 HemN C-terminal region; Region: HemN_C; pfam06969 171101003878 YtxH-like protein; Region: YtxH; cl02079 171101003879 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 171101003880 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 171101003881 HPr kinase/phosphorylase; Provisional; Region: PRK05428 171101003882 DRTGG domain; Region: DRTGG; cl12147 171101003883 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 171101003884 Hpr binding site; other site 171101003885 active site 171101003886 homohexamer subunit interaction site [polypeptide binding]; other site 171101003887 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 171101003888 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 171101003889 active site 171101003890 trimer interface [polypeptide binding]; other site 171101003891 allosteric site; other site 171101003892 active site lid [active] 171101003893 hexamer (dimer of trimers) interface [polypeptide binding]; other site 171101003894 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 171101003895 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 171101003896 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101003897 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101003898 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101003899 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101003900 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101003901 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 171101003902 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 171101003903 homodimer interface [polypeptide binding]; other site 171101003904 NAD binding pocket [chemical binding]; other site 171101003905 ATP binding pocket [chemical binding]; other site 171101003906 Mg binding site [ion binding]; other site 171101003907 active-site loop [active] 171101003908 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 171101003909 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 171101003910 active site 171101003911 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 171101003912 non-specific DNA binding site [nucleotide binding]; other site 171101003913 salt bridge; other site 171101003914 sequence-specific DNA binding site [nucleotide binding]; other site 171101003915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003916 Q-loop/lid; other site 171101003917 ABC transporter signature motif; other site 171101003918 Walker B; other site 171101003919 D-loop; other site 171101003920 H-loop/switch region; other site 171101003921 Peptidase family U32; Region: Peptidase_U32; cl03113 171101003922 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 171101003923 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 171101003924 Peptidase family U32; Region: Peptidase_U32; cl03113 171101003925 ApaLI-like restriction endonuclease; Region: RE_ApaLI; pfam09499 171101003926 ApaLI-like restriction endonuclease; Region: RE_ApaLI; pfam09499 171101003927 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101003928 Helix-turn-helix domain; Region: HTH_18; pfam12833 171101003929 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101003930 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003931 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101003932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003933 Walker A/P-loop; other site 171101003934 ATP binding site [chemical binding]; other site 171101003935 Q-loop/lid; other site 171101003936 ABC transporter signature motif; other site 171101003937 Walker B; other site 171101003938 D-loop; other site 171101003939 H-loop/switch region; other site 171101003940 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003942 Walker A/P-loop; other site 171101003943 ATP binding site [chemical binding]; other site 171101003944 Q-loop/lid; other site 171101003945 ABC transporter signature motif; other site 171101003946 Walker B; other site 171101003947 D-loop; other site 171101003948 H-loop/switch region; other site 171101003949 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 171101003950 Cobalt transport protein; Region: CbiQ; cl00463 171101003951 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 171101003952 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 171101003953 Walker A/P-loop; other site 171101003954 ATP binding site [chemical binding]; other site 171101003955 Q-loop/lid; other site 171101003956 ABC transporter signature motif; other site 171101003957 Walker B; other site 171101003958 D-loop; other site 171101003959 H-loop/switch region; other site 171101003960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101003961 Walker A/P-loop; other site 171101003962 ATP binding site [chemical binding]; other site 171101003963 Q-loop/lid; other site 171101003964 ABC transporter signature motif; other site 171101003965 Walker B; other site 171101003966 D-loop; other site 171101003967 H-loop/switch region; other site 171101003968 Integrase core domain; Region: rve; cl01316 171101003969 Integrase core domain; Region: rve; cl01316 171101003970 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 171101003971 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 171101003972 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 171101003973 GMP synthase; Reviewed; Region: guaA; PRK00074 171101003974 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 171101003975 AMP/PPi binding site [chemical binding]; other site 171101003976 candidate oxyanion hole; other site 171101003977 catalytic triad [active] 171101003978 potential glutamine specificity residues [chemical binding]; other site 171101003979 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 171101003980 ATP Binding subdomain [chemical binding]; other site 171101003981 Dimerization subdomain; other site 171101003982 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 171101003983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101003984 DNA-binding site [nucleotide binding]; DNA binding site 171101003985 UTRA domain; Region: UTRA; cl01230 171101003986 EamA-like transporter family; Region: EamA; cl01037 171101003987 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 171101003988 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 171101003989 active site 171101003990 catalytic triad [active] 171101003991 oxyanion hole [active] 171101003992 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 171101003993 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 171101003994 active site 171101003995 motif I; other site 171101003996 motif II; other site 171101003997 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 171101003998 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 171101003999 putative active site [active] 171101004000 putative metal binding site [ion binding]; other site 171101004001 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 171101004002 active site 171101004003 catalytic residues [active] 171101004004 metal binding site [ion binding]; metal-binding site 171101004005 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 171101004006 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 171101004007 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 171101004008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004009 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 171101004010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004011 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 171101004012 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101004013 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 171101004014 Walker A/P-loop; other site 171101004015 ATP binding site [chemical binding]; other site 171101004016 Q-loop/lid; other site 171101004017 ABC transporter signature motif; other site 171101004018 Walker B; other site 171101004019 D-loop; other site 171101004020 H-loop/switch region; other site 171101004021 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 171101004022 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 171101004023 ABC-ATPase subunit interface; other site 171101004024 putative PBP binding loops; other site 171101004025 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 171101004026 putative ArsC-like catalytic residues; other site 171101004027 putative TRX-like catalytic residues [active] 171101004028 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 171101004029 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 171101004030 DNA binding site [nucleotide binding] 171101004031 active site 171101004032 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101004033 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 171101004034 Haemolysin-III related; Region: HlyIII; cl03831 171101004035 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 171101004036 predicted active site [active] 171101004037 catalytic triad [active] 171101004038 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 171101004039 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 171101004040 active site 171101004041 multimer interface [polypeptide binding]; other site 171101004042 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 171101004043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004044 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 171101004045 ApbE family; Region: ApbE; cl00643 171101004046 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 171101004047 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 171101004048 Uncharacterized conserved protein [Function unknown]; Region: COG2461 171101004049 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 171101004050 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 171101004051 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 171101004052 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 171101004053 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 171101004054 dimer interface [polypeptide binding]; other site 171101004055 motif 1; other site 171101004056 active site 171101004057 motif 2; other site 171101004058 motif 3; other site 171101004059 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 171101004060 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 171101004061 active site 171101004062 catalytic tetrad [active] 171101004063 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 171101004064 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 171101004065 NodB motif; other site 171101004066 active site 171101004067 catalytic site [active] 171101004068 Zn binding site [ion binding]; other site 171101004069 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 171101004070 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 171101004071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004073 DEAD-like helicases superfamily; Region: DEXDc; smart00487 171101004074 ATP binding site [chemical binding]; other site 171101004075 putative Mg++ binding site [ion binding]; other site 171101004076 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 171101004077 nucleotide binding region [chemical binding]; other site 171101004078 ATP-binding site [chemical binding]; other site 171101004079 Integrase core domain; Region: rve; cl01316 171101004080 Integrase core domain; Region: rve; cl01316 171101004081 putative transposase OrfB; Reviewed; Region: PHA02517 171101004082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 171101004083 Winged helix-turn helix; Region: HTH_29; pfam13551 171101004084 Winged helix-turn helix; Region: HTH_33; pfam13592 171101004085 elongation factor Tu; Reviewed; Region: PRK00049 171101004086 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 171101004087 G1 box; other site 171101004088 GEF interaction site [polypeptide binding]; other site 171101004089 GTP/Mg2+ binding site [chemical binding]; other site 171101004090 Switch I region; other site 171101004091 G2 box; other site 171101004092 G3 box; other site 171101004093 Switch II region; other site 171101004094 G4 box; other site 171101004095 G5 box; other site 171101004096 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 171101004097 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 171101004098 Antibiotic Binding Site [chemical binding]; other site 171101004099 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 171101004100 amphipathic channel; other site 171101004101 Asn-Pro-Ala signature motifs; other site 171101004102 MucBP domain; Region: MucBP; pfam06458 171101004103 Integrase core domain; Region: rve; cl01316 171101004104 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101004105 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 171101004106 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 171101004107 active site 171101004108 substrate binding site [chemical binding]; other site 171101004109 metal binding site [ion binding]; metal-binding site 171101004110 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 171101004111 catalytic residues [active] 171101004112 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101004113 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 171101004114 substrate binding pocket [chemical binding]; other site 171101004115 membrane-bound complex binding site; other site 171101004116 hinge residues; other site 171101004117 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101004118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004119 Walker A/P-loop; other site 171101004120 ATP binding site [chemical binding]; other site 171101004121 Q-loop/lid; other site 171101004122 ABC transporter signature motif; other site 171101004123 Walker B; other site 171101004124 D-loop; other site 171101004125 H-loop/switch region; other site 171101004126 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 171101004127 dimer interface [polypeptide binding]; other site 171101004128 conserved gate region; other site 171101004129 putative PBP binding loops; other site 171101004130 ABC-ATPase subunit interface; other site 171101004131 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 171101004132 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 171101004133 binding surface 171101004134 TPR motif; other site 171101004135 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 171101004136 Domain of unknown function DUF20; Region: UPF0118; cl00465 171101004137 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 171101004138 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 171101004139 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 171101004140 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 171101004141 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 171101004142 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 171101004143 alpha subunit interaction interface [polypeptide binding]; other site 171101004144 Walker A motif; other site 171101004145 ATP binding site [chemical binding]; other site 171101004146 Walker B motif; other site 171101004147 inhibitor binding site; inhibition site 171101004148 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 171101004149 ATP synthase; Region: ATP-synt; cl00365 171101004150 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 171101004151 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 171101004152 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 171101004153 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 171101004154 beta subunit interaction interface [polypeptide binding]; other site 171101004155 Walker A motif; other site 171101004156 ATP binding site [chemical binding]; other site 171101004157 Walker B motif; other site 171101004158 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 171101004159 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 171101004160 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 171101004161 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 171101004162 Plant ATP synthase F0; Region: YMF19; cl07975 171101004163 ATP synthase A chain; Region: ATP-synt_A; cl00413 171101004164 ATP synthase subunit C; Region: ATP-synt_C; cl00466 171101004165 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 171101004166 Integrase core domain; Region: rve; cl01316 171101004167 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101004168 Coenzyme A binding pocket [chemical binding]; other site 171101004169 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 171101004170 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 171101004171 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 171101004172 YceG-like family; Region: YceG; pfam02618 171101004173 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 171101004174 dimerization interface [polypeptide binding]; other site 171101004175 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 171101004176 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101004177 Coenzyme A binding pocket [chemical binding]; other site 171101004178 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 171101004179 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 171101004180 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 171101004181 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101004182 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 171101004183 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 171101004184 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 171101004185 ATP binding site [chemical binding]; other site 171101004186 putative Mg++ binding site [ion binding]; other site 171101004187 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 171101004188 nucleotide binding region [chemical binding]; other site 171101004189 ATP-binding site [chemical binding]; other site 171101004190 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 171101004191 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 171101004192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101004193 homodimer interface [polypeptide binding]; other site 171101004194 catalytic residue [active] 171101004195 cystathionine gamma-synthase; Reviewed; Region: PRK07269 171101004196 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 171101004197 homodimer interface [polypeptide binding]; other site 171101004198 substrate-cofactor binding pocket; other site 171101004199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101004200 catalytic residue [active] 171101004201 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004202 H-loop/switch region; other site 171101004203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004204 Walker A/P-loop; other site 171101004205 ATP binding site [chemical binding]; other site 171101004206 Q-loop/lid; other site 171101004207 ABC transporter signature motif; other site 171101004208 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101004209 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 171101004210 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 171101004211 peptide binding site [polypeptide binding]; other site 171101004212 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 171101004213 MatE; Region: MatE; cl10513 171101004214 stage V sporulation protein B; Region: spore_V_B; TIGR02900 171101004215 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 171101004216 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 171101004217 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 171101004218 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101004219 CsbD-like; Region: CsbD; cl01888 171101004220 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 171101004221 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 171101004222 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 171101004223 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 171101004224 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 171101004225 DHHA2 domain; Region: DHHA2; pfam02833 171101004226 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 171101004227 GIY-YIG motif/motif A; other site 171101004228 putative active site [active] 171101004229 putative metal binding site [ion binding]; other site 171101004230 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 171101004231 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 171101004232 S-adenosylmethionine binding site [chemical binding]; other site 171101004233 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 171101004234 RNA binding site [nucleotide binding]; other site 171101004235 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 171101004236 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 171101004237 active site 171101004238 motif I; other site 171101004239 motif II; other site 171101004240 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101004241 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 171101004242 active site 171101004243 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 171101004244 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 171101004245 dimer interface [polypeptide binding]; other site 171101004246 ssDNA binding site [nucleotide binding]; other site 171101004247 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101004248 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 171101004249 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 171101004250 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 171101004251 putative dimer interface [polypeptide binding]; other site 171101004252 putative anticodon binding site; other site 171101004253 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 171101004254 homodimer interface [polypeptide binding]; other site 171101004255 motif 1; other site 171101004256 motif 2; other site 171101004257 active site 171101004258 motif 3; other site 171101004259 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 171101004260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 171101004261 aspartate aminotransferase; Provisional; Region: PRK05764 171101004262 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 171101004263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101004264 homodimer interface [polypeptide binding]; other site 171101004265 catalytic residue [active] 171101004266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 171101004267 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 171101004268 G5 domain; Region: G5; pfam07501 171101004269 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004270 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004271 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004272 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004273 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004274 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004275 Filamin/ABP280 repeat; Region: Filamin; cl02665 171101004276 Helix-turn-helix domains; Region: HTH; cl00088 171101004277 Helix-turn-helix domains; Region: HTH; cl00088 171101004278 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 171101004279 Protein of unknown function (DUF328); Region: DUF328; cl01143 171101004280 Protein of unknown function (DUF3953); Region: DUF3953; pfam13129 171101004281 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 171101004282 active site 171101004283 catalytic residues [active] 171101004284 metal binding site [ion binding]; metal-binding site 171101004285 putative S-transferase; Provisional; Region: PRK11752 171101004286 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 171101004287 C-terminal domain interface [polypeptide binding]; other site 171101004288 GSH binding site (G-site) [chemical binding]; other site 171101004289 dimer interface [polypeptide binding]; other site 171101004290 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 171101004291 N-terminal domain interface [polypeptide binding]; other site 171101004292 dimer interface [polypeptide binding]; other site 171101004293 substrate binding pocket (H-site) [chemical binding]; other site 171101004294 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 171101004295 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 171101004296 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101004297 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 171101004298 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101004299 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 171101004300 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 171101004301 Cation efflux family; Region: Cation_efflux; cl00316 171101004302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 171101004303 ATP-binding cassette protein, ChvD family; Region: ABC_ABC_ChvD; TIGR03719 171101004304 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 171101004305 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 171101004306 active site 171101004307 NTP binding site [chemical binding]; other site 171101004308 metal binding triad [ion binding]; metal-binding site 171101004309 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 171101004310 dihydrodipicolinate reductase; Provisional; Region: PRK00048 171101004311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004312 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 171101004313 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 171101004314 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 171101004315 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 171101004316 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 171101004317 active site 171101004318 substrate binding site [chemical binding]; other site 171101004319 metal binding site [ion binding]; metal-binding site 171101004320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 171101004321 YbbR-like protein; Region: YbbR; pfam07949 171101004322 Uncharacterized conserved protein [Function unknown]; Region: COG1624 171101004323 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 171101004324 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 171101004325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 171101004328 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 171101004329 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 171101004330 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 171101004331 dimer interface [polypeptide binding]; other site 171101004332 phosphate binding site [ion binding]; other site 171101004333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004334 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 171101004335 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 171101004336 homotrimer interaction site [polypeptide binding]; other site 171101004337 putative active site [active] 171101004338 Predicted GTPase [General function prediction only]; Region: COG0218 171101004339 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 171101004340 G1 box; other site 171101004341 GTP/Mg2+ binding site [chemical binding]; other site 171101004342 Switch I region; other site 171101004343 G2 box; other site 171101004344 G3 box; other site 171101004345 Switch II region; other site 171101004346 G4 box; other site 171101004347 G5 box; other site 171101004348 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 171101004349 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 171101004350 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 171101004351 Walker A motif; other site 171101004352 ATP binding site [chemical binding]; other site 171101004353 Walker B motif; other site 171101004354 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 171101004355 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 171101004356 folate binding site [chemical binding]; other site 171101004357 NADP+ binding site [chemical binding]; other site 171101004358 Ferritin-like domain; Region: Ferritin; pfam00210 171101004359 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 171101004360 dimerization interface [polypeptide binding]; other site 171101004361 DPS ferroxidase diiron center [ion binding]; other site 171101004362 ion pore; other site 171101004363 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101004364 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 171101004365 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 171101004366 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 171101004367 active site 171101004368 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 171101004369 substrate binding site [chemical binding]; other site 171101004370 dimer interface [polypeptide binding]; other site 171101004371 catalytic triad [active] 171101004372 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 171101004373 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 171101004374 Homoserine O-succinyltransferase; Region: HTS; pfam04204 171101004375 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 171101004376 proposed active site lysine [active] 171101004377 conserved cys residue [active] 171101004378 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101004379 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 171101004380 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 171101004381 S-adenosylmethionine binding site [chemical binding]; other site 171101004382 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 171101004383 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 171101004384 Walker A/P-loop; other site 171101004385 ATP binding site [chemical binding]; other site 171101004386 Q-loop/lid; other site 171101004387 ABC transporter signature motif; other site 171101004388 Walker B; other site 171101004389 D-loop; other site 171101004390 H-loop/switch region; other site 171101004391 TOBE domain; Region: TOBE_2; cl01440 171101004392 Isochorismatase family; Region: Isochorismatase; pfam00857 171101004393 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 171101004394 catalytic triad [active] 171101004395 conserved cis-peptide bond; other site 171101004396 CodY GAF-like domain; Region: CodY; pfam06018 171101004397 GTP-sensing transcriptional pleiotropic repressor CodY; Region: codY_Gpos; TIGR02787 171101004398 Helix-turn-helix domains; Region: HTH; cl00088 171101004399 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 171101004400 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 171101004401 ATP binding site [chemical binding]; other site 171101004402 Mg++ binding site [ion binding]; other site 171101004403 motif III; other site 171101004404 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 171101004405 nucleotide binding region [chemical binding]; other site 171101004406 ATP-binding site [chemical binding]; other site 171101004407 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 171101004408 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 171101004409 putative substrate translocation pore; other site 171101004410 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 171101004411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004413 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 171101004414 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 171101004415 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 171101004416 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 171101004417 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 171101004418 catalytic triad [active] 171101004419 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 171101004420 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 171101004421 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 171101004422 active site 171101004423 Integrase core domain; Region: rve; cl01316 171101004424 putative transposase OrfB; Reviewed; Region: PHA02517 171101004425 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 171101004426 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 171101004427 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 171101004428 dimer interface [polypeptide binding]; other site 171101004429 substrate binding site [chemical binding]; other site 171101004430 ATP binding site [chemical binding]; other site 171101004431 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 171101004432 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 171101004433 dimerization interface 3.5A [polypeptide binding]; other site 171101004434 active site 171101004435 Major Facilitator Superfamily; Region: MFS_1; pfam07690 171101004436 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 171101004437 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 171101004438 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 171101004439 PhnA protein; Region: PhnA; pfam03831 171101004440 cytidylate kinase; Provisional; Region: cmk; PRK00023 171101004441 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 171101004442 CMP-binding site; other site 171101004443 The sites determining sugar specificity; other site 171101004444 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 171101004445 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 171101004446 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 171101004447 Ligand binding site; other site 171101004448 Putative Catalytic site; other site 171101004449 DXD motif; other site 171101004450 UDP-glucose 4-epimerase; Region: PLN02240 171101004451 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 171101004452 NAD binding site [chemical binding]; other site 171101004453 homodimer interface [polypeptide binding]; other site 171101004454 active site 171101004455 substrate binding site [chemical binding]; other site 171101004456 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 171101004457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004458 Uncharacterized conserved protein [Function unknown]; Region: COG0327 171101004459 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 171101004460 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101004461 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 171101004462 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101004463 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 171101004464 motif II; other site 171101004465 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 171101004466 putative acyl-acceptor binding pocket; other site 171101004467 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 171101004468 Cadmium resistance transporter; Region: Cad; cl04177 171101004469 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 171101004470 16S/18S rRNA binding site [nucleotide binding]; other site 171101004471 S13e-L30e interaction site [polypeptide binding]; other site 171101004472 25S rRNA binding site [nucleotide binding]; other site 171101004473 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 171101004474 NAD binding site [chemical binding]; other site 171101004475 substrate binding site [chemical binding]; other site 171101004476 putative active site [active] 171101004477 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 171101004478 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 171101004479 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 171101004480 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 171101004481 active site 171101004482 dimer interface [polypeptide binding]; other site 171101004483 motif 1; other site 171101004484 motif 2; other site 171101004485 motif 3; other site 171101004486 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 171101004487 anticodon binding site; other site 171101004488 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101004489 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 171101004490 ATP binding site [chemical binding]; other site 171101004491 Mg2+ binding site [ion binding]; other site 171101004492 G-X-G motif; other site 171101004493 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101004494 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 171101004495 active site 171101004496 phosphorylation site [posttranslational modification] 171101004497 intermolecular recognition site; other site 171101004498 dimerization interface [polypeptide binding]; other site 171101004499 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 171101004500 DNA binding site [nucleotide binding] 171101004501 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 becoming...; Region: Lipase; cl14883 171101004502 nucleophilic elbow; other site 171101004503 catalytic triad; other site 171101004504 Predicted transcriptional regulator [Transcription]; Region: COG1959 171101004505 Helix-turn-helix domains; Region: HTH; cl00088 171101004506 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 171101004507 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 171101004508 active site 171101004509 metal binding site [ion binding]; metal-binding site 171101004510 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 171101004511 Helix-turn-helix domains; Region: HTH; cl00088 171101004512 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 171101004513 FeoA domain; Region: FeoA; cl00838 171101004514 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 171101004515 putative active site [active] 171101004516 dimerization interface [polypeptide binding]; other site 171101004517 putative tRNAtyr binding site [nucleotide binding]; other site 171101004518 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 171101004519 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 171101004520 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 171101004521 synthetase active site [active] 171101004522 NTP binding site [chemical binding]; other site 171101004523 metal binding site [ion binding]; metal-binding site 171101004524 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 171101004525 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 171101004526 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101004527 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 171101004528 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 171101004529 active site 171101004530 Zn binding site [ion binding]; other site 171101004531 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 171101004532 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 171101004533 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 171101004534 ABC-ATPase subunit interface; other site 171101004535 dimer interface [polypeptide binding]; other site 171101004536 putative PBP binding regions; other site 171101004537 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 171101004538 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 171101004539 metal binding site [ion binding]; metal-binding site 171101004540 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 171101004541 dimer interface [polypeptide binding]; other site 171101004542 catalytic triad [active] 171101004543 peroxidatic and resolving cysteines [active] 171101004544 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 171101004545 FtsX-like permease family; Region: FtsX; pfam02687 171101004546 FtsX-like permease family; Region: FtsX; pfam02687 171101004547 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101004548 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101004549 Walker A/P-loop; other site 171101004550 ATP binding site [chemical binding]; other site 171101004551 Q-loop/lid; other site 171101004552 ABC transporter signature motif; other site 171101004553 Walker B; other site 171101004554 D-loop; other site 171101004555 H-loop/switch region; other site 171101004556 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 171101004557 catalytic core [active] 171101004558 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 171101004559 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 171101004560 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 171101004561 active site 171101004562 HIGH motif; other site 171101004563 nucleotide binding site [chemical binding]; other site 171101004564 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 171101004565 active site 171101004566 KMSKS motif; other site 171101004567 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 171101004568 tRNA binding surface [nucleotide binding]; other site 171101004569 anticodon binding site; other site 171101004570 DivIVA protein; Region: DivIVA; pfam05103 171101004571 DivIVA domain; Region: DivI1A_domain; TIGR03544 171101004572 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 171101004573 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 171101004574 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 171101004575 RNA binding surface [nucleotide binding]; other site 171101004576 YGGT family; Region: YGGT; cl00508 171101004577 Protein of unknown function (DUF552); Region: DUF552; cl00775 171101004578 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 171101004579 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101004580 catalytic residue [active] 171101004581 cell division protein FtsZ; Validated; Region: PRK09330 171101004582 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 171101004583 nucleotide binding site [chemical binding]; other site 171101004584 SulA interaction site; other site 171101004585 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 171101004586 Cell division protein FtsA; Region: FtsA; cl11496 171101004587 Cell division protein FtsA; Region: FtsA; cl11496 171101004588 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 171101004589 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 171101004590 Predicted integral membrane protein [Function unknown]; Region: COG5522; cl02331 171101004591 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 171101004592 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 171101004593 nudix motif; other site 171101004594 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 171101004595 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 171101004596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 171101004597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101004598 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 171101004599 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 171101004600 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 171101004601 recombination protein RecR; Reviewed; Region: recR; PRK00076 171101004602 RecR protein; Region: RecR; pfam02132 171101004603 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 171101004604 putative active site [active] 171101004605 putative metal-binding site [ion binding]; other site 171101004606 tetramer interface [polypeptide binding]; other site 171101004607 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 171101004608 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 171101004609 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 171101004610 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 171101004611 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 171101004612 putative active site [active] 171101004613 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101004614 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 171101004615 catalytic site [active] 171101004616 metal binding site [ion binding]; metal-binding site 171101004617 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 171101004618 catalytic residue [active] 171101004619 Protein of unknown function, DUF624; Region: DUF624; cl02369 171101004620 Domain of unknown function (DUF386); Region: DUF386; cl01047 171101004621 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004622 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 171101004623 dimer interface [polypeptide binding]; other site 171101004624 conserved gate region; other site 171101004625 putative PBP binding loops; other site 171101004626 ABC-ATPase subunit interface; other site 171101004627 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 171101004628 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 171101004629 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 171101004630 putative PBP binding loops; other site 171101004631 dimer interface [polypeptide binding]; other site 171101004632 ABC-ATPase subunit interface; other site 171101004633 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101004634 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101004635 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 171101004636 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101004637 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 171101004638 active site turn [active] 171101004639 phosphorylation site [posttranslational modification] 171101004640 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 171101004641 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 171101004642 putative active site cavity [active] 171101004643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101004644 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 171101004645 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 171101004646 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 171101004647 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 171101004648 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 171101004649 Asp-box motif; other site 171101004650 catalytic site [active] 171101004651 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004652 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 171101004653 dimer interface [polypeptide binding]; other site 171101004654 conserved gate region; other site 171101004655 putative PBP binding loops; other site 171101004656 ABC-ATPase subunit interface; other site 171101004657 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 171101004658 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 171101004659 dimer interface [polypeptide binding]; other site 171101004660 conserved gate region; other site 171101004661 putative PBP binding loops; other site 171101004662 ABC-ATPase subunit interface; other site 171101004663 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101004664 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101004665 Domain of unknown function (DUF386); Region: DUF386; cl01047 171101004666 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101004667 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 171101004668 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 171101004669 catalytic site [active] 171101004670 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 171101004671 Asp-box motif; other site 171101004672 Asp-box motif; other site 171101004673 catalytic site [active] 171101004674 Procyclic acidic repetitive protein (PARP); Region: Trypan_PARP; pfam05887 171101004675 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 171101004676 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 171101004677 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 171101004678 generic binding surface II; other site 171101004679 ssDNA binding site; other site 171101004680 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 171101004681 ATP binding site [chemical binding]; other site 171101004682 putative Mg++ binding site [ion binding]; other site 171101004683 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 171101004684 nucleotide binding region [chemical binding]; other site 171101004685 ATP-binding site [chemical binding]; other site 171101004686 alanine racemase; Reviewed; Region: alr; PRK00053 171101004687 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 171101004688 active site 171101004689 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101004690 dimer interface [polypeptide binding]; other site 171101004691 substrate binding site [chemical binding]; other site 171101004692 catalytic residues [active] 171101004693 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 171101004694 NeuB family; Region: NeuB; cl00496 171101004695 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 171101004696 NeuB family; Region: NeuB; cl00496 171101004697 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 171101004698 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 171101004699 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 171101004700 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 171101004701 nucleotide binding region [chemical binding]; other site 171101004702 ATP-binding site [chemical binding]; other site 171101004703 SEC-C motif; Region: SEC-C; pfam02810 171101004704 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 171101004705 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 171101004706 Walker A/P-loop; other site 171101004707 ATP binding site [chemical binding]; other site 171101004708 Q-loop/lid; other site 171101004709 ABC transporter signature motif; other site 171101004710 Walker B; other site 171101004711 D-loop; other site 171101004712 H-loop/switch region; other site 171101004713 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 171101004714 non-specific DNA binding site [nucleotide binding]; other site 171101004715 salt bridge; other site 171101004716 sequence-specific DNA binding site [nucleotide binding]; other site 171101004717 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101004718 GTP-binding protein Der; Reviewed; Region: PRK00093 171101004719 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 171101004720 G1 box; other site 171101004721 GTP/Mg2+ binding site [chemical binding]; other site 171101004722 Switch I region; other site 171101004723 G2 box; other site 171101004724 Switch II region; other site 171101004725 G3 box; other site 171101004726 G4 box; other site 171101004727 G5 box; other site 171101004728 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 171101004729 G1 box; other site 171101004730 GTP/Mg2+ binding site [chemical binding]; other site 171101004731 Switch I region; other site 171101004732 G2 box; other site 171101004733 G3 box; other site 171101004734 Switch II region; other site 171101004735 G4 box; other site 171101004736 G5 box; other site 171101004737 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 171101004738 dimer interface [polypeptide binding]; other site 171101004739 FMN binding site [chemical binding]; other site 171101004740 NADPH bind site [chemical binding]; other site 171101004741 primosomal protein DnaI; Reviewed; Region: PRK08939 171101004742 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 171101004743 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 171101004744 Walker A motif; other site 171101004745 ATP binding site [chemical binding]; other site 171101004746 Walker B motif; other site 171101004747 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 171101004748 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 171101004749 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 171101004750 ATP cone domain; Region: ATP-cone; pfam03477 171101004751 Predicted transcriptional regulators [Transcription]; Region: COG1725 171101004752 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101004753 DNA-binding site [nucleotide binding]; DNA binding site 171101004754 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 171101004755 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004756 Walker A/P-loop; other site 171101004757 ATP binding site [chemical binding]; other site 171101004758 Q-loop/lid; other site 171101004759 ABC transporter signature motif; other site 171101004760 Walker B; other site 171101004761 D-loop; other site 171101004762 H-loop/switch region; other site 171101004763 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 171101004764 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 171101004765 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004766 Walker A/P-loop; other site 171101004767 ATP binding site [chemical binding]; other site 171101004768 Q-loop/lid; other site 171101004769 ABC transporter signature motif; other site 171101004770 Walker B; other site 171101004771 D-loop; other site 171101004772 H-loop/switch region; other site 171101004773 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 171101004774 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 171101004775 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101004776 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 171101004777 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 171101004778 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 171101004779 active site turn [active] 171101004780 phosphorylation site [posttranslational modification] 171101004781 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101004782 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 171101004783 HPr interaction site; other site 171101004784 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101004785 active site 171101004786 phosphorylation site [posttranslational modification] 171101004787 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 171101004788 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 171101004789 substrate binding [chemical binding]; other site 171101004790 active site 171101004791 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 171101004792 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101004793 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101004794 DNA binding site [nucleotide binding] 171101004795 domain linker motif; other site 171101004796 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 171101004797 dimerization interface [polypeptide binding]; other site 171101004798 ligand binding site [chemical binding]; other site 171101004799 sodium binding site [ion binding]; other site 171101004800 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 171101004801 homodimer interface [polypeptide binding]; other site 171101004802 NAD binding site [chemical binding]; other site 171101004803 catalytic residues [active] 171101004804 substrate binding pocket [chemical binding]; other site 171101004805 flexible flap; other site 171101004806 '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 characterized by the...; Region: init_cond_enzymes; cd00827 171101004807 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 171101004808 dimer interface [polypeptide binding]; other site 171101004809 active site 171101004810 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101004811 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 171101004812 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 171101004813 Uncharacterized conserved protein [Function unknown]; Region: COG2966 171101004814 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 171101004815 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 171101004816 Catalytic domain of Protein Kinases; Region: PKc; cd00180 171101004817 active site 171101004818 ATP binding site [chemical binding]; other site 171101004819 substrate binding site [chemical binding]; other site 171101004820 activation loop (A-loop); other site 171101004821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 171101004822 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 171101004823 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 171101004824 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 171101004825 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 171101004826 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 171101004827 active site 171101004828 16S rRNA methyltransferase B; Provisional; Region: PRK14902 171101004829 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 171101004830 putative RNA binding site [nucleotide binding]; other site 171101004831 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101004832 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 171101004833 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 171101004834 putative active site [active] 171101004835 substrate binding site [chemical binding]; other site 171101004836 putative cosubstrate binding site; other site 171101004837 catalytic site [active] 171101004838 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 171101004839 substrate binding site [chemical binding]; other site 171101004840 primosome assembly protein PriA; Validated; Region: PRK05580 171101004841 primosome assembly protein PriA; Validated; Region: PRK05580 171101004842 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 171101004843 ATP binding site [chemical binding]; other site 171101004844 putative Mg++ binding site [ion binding]; other site 171101004845 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004846 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 171101004847 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 171101004848 catalytic site [active] 171101004849 G-X2-G-X-G-K; other site 171101004850 sensor protein KdpD; Provisional; Region: PRK10490 171101004851 hypothetical protein; Provisional; Region: PRK00106 171101004852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 171101004853 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 171101004854 Phd_YefM; Region: PhdYeFM; cl09153 171101004855 hypothetical protein; Provisional; Region: PRK13670 171101004856 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 171101004857 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 171101004858 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 171101004859 S-adenosylmethionine binding site [chemical binding]; other site 171101004860 Domain of unknown function DUF143; Region: DUF143; cl00519 171101004861 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 171101004862 catalytic triad [active] 171101004863 conserved cis-peptide bond; other site 171101004864 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 171101004865 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 171101004866 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 171101004867 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 171101004868 active site 171101004869 (T/H)XGH motif; other site 171101004870 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 171101004871 GTPase YqeH; Provisional; Region: PRK13796 171101004872 YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically...; Region: YqeH; cd01855 171101004873 GTP/Mg2+ binding site [chemical binding]; other site 171101004874 G4 box; other site 171101004875 G5 box; other site 171101004876 G1 box; other site 171101004877 Switch I region; other site 171101004878 G2 box; other site 171101004879 G3 box; other site 171101004880 Switch II region; other site 171101004881 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 171101004882 active site 171101004883 motif I; other site 171101004884 motif II; other site 171101004885 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 171101004886 Mechanosensitive ion channel; Region: MS_channel; pfam00924 171101004887 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 171101004888 Predicted membrane protein [Function unknown]; Region: COG4129 171101004889 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 171101004890 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 171101004891 Helix-turn-helix domains; Region: HTH; cl00088 171101004892 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 171101004893 catalytic residues [active] 171101004894 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 171101004895 Ligand Binding Site [chemical binding]; other site 171101004896 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 171101004897 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 171101004898 amphipathic channel; other site 171101004899 Asn-Pro-Ala signature motifs; other site 171101004900 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 171101004901 oligoendopeptidase F; Region: pepF; TIGR00181 171101004902 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 171101004903 Zn binding site [ion binding]; other site 171101004904 RNA methyltransferase, RsmE family; Region: TIGR00046 171101004905 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 171101004906 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 171101004907 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 171101004908 S-adenosylmethionine binding site [chemical binding]; other site 171101004909 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 171101004910 nudix motif; other site 171101004911 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 171101004912 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 171101004913 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 171101004914 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 171101004915 YcfA-like protein; Region: YcfA; cl00752 171101004916 recombination factor protein RarA; Reviewed; Region: PRK13342 171101004917 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 171101004918 Walker A motif; other site 171101004919 ATP binding site [chemical binding]; other site 171101004920 Walker B motif; other site 171101004921 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101004922 arginine finger; other site 171101004923 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 171101004924 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 171101004925 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 171101004926 substrate binding [chemical binding]; other site 171101004927 active site 171101004928 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 171101004929 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 171101004930 dimer interface [polypeptide binding]; other site 171101004931 conserved gate region; other site 171101004932 putative PBP binding loops; other site 171101004933 ABC-ATPase subunit interface; other site 171101004934 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 171101004935 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 171101004936 dimer interface [polypeptide binding]; other site 171101004937 conserved gate region; other site 171101004938 putative PBP binding loops; other site 171101004939 ABC-ATPase subunit interface; other site 171101004940 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101004941 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101004942 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101004943 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101004944 DNA binding site [nucleotide binding] 171101004945 domain linker motif; other site 171101004946 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 171101004947 dimerization interface [polypeptide binding]; other site 171101004948 ligand binding site [chemical binding]; other site 171101004949 sodium binding site [ion binding]; other site 171101004950 Helix-turn-helix domains; Region: HTH; cl00088 171101004951 Helix-turn-helix domains; Region: HTH; cl00088 171101004952 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 171101004953 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 171101004954 Asp23 family; Region: Asp23; cl00574 171101004955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101004956 Coenzyme A binding pocket [chemical binding]; other site 171101004957 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 171101004958 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 171101004959 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 171101004960 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 171101004961 non-specific DNA binding site [nucleotide binding]; other site 171101004962 salt bridge; other site 171101004963 sequence-specific DNA binding site [nucleotide binding]; other site 171101004964 Domain of unknown function (DUF955); Region: DUF955; cl01076 171101004965 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 171101004966 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 171101004967 substrate binding site [chemical binding]; other site 171101004968 active site 171101004969 catalytic residues [active] 171101004970 heterodimer interface [polypeptide binding]; other site 171101004971 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 171101004972 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 171101004973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101004974 catalytic residue [active] 171101004975 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 171101004976 active site 171101004977 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 171101004978 active site 171101004979 ribulose/triose binding site [chemical binding]; other site 171101004980 phosphate binding site [ion binding]; other site 171101004981 substrate (anthranilate) binding pocket [chemical binding]; other site 171101004982 product (indole) binding pocket [chemical binding]; other site 171101004983 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 171101004984 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 171101004985 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 171101004986 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 171101004987 Glutamine amidotransferase class-I; Region: GATase; pfam00117 171101004988 glutamine binding [chemical binding]; other site 171101004989 catalytic triad [active] 171101004990 anthranilate synthase component I; Provisional; Region: PRK13570 171101004991 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 171101004992 chorismate binding enzyme; Region: Chorismate_bind; cl10555 171101004993 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101004994 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101004995 DNA binding site [nucleotide binding] 171101004996 domain linker motif; other site 171101004997 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 171101004998 putative dimerization interface [polypeptide binding]; other site 171101004999 putative ligand binding site [chemical binding]; other site 171101005000 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 171101005001 MgtC family; Region: MgtC; pfam02308 171101005002 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 171101005003 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 171101005004 dimer interface [polypeptide binding]; other site 171101005005 conserved gate region; other site 171101005006 putative PBP binding loops; other site 171101005007 ABC-ATPase subunit interface; other site 171101005008 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 171101005009 putative PBP binding loops; other site 171101005010 dimer interface [polypeptide binding]; other site 171101005011 ABC-ATPase subunit interface; other site 171101005012 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 171101005013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005014 Walker A/P-loop; other site 171101005015 ATP binding site [chemical binding]; other site 171101005016 Q-loop/lid; other site 171101005017 ABC transporter signature motif; other site 171101005018 Walker B; other site 171101005019 D-loop; other site 171101005020 H-loop/switch region; other site 171101005021 TOBE domain; Region: TOBE_2; cl01440 171101005022 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101005023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 171101005024 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 171101005025 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 171101005026 UDP-glucose 4-epimerase; Region: PLN02240 171101005027 NAD binding site [chemical binding]; other site 171101005028 homodimer interface [polypeptide binding]; other site 171101005029 active site 171101005030 substrate binding site [chemical binding]; other site 171101005031 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 171101005032 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 171101005033 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 171101005034 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 171101005035 PhoU domain; Region: PhoU; pfam01895 171101005036 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 171101005037 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101005038 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 171101005039 Pectate lyase; Region: Pec_lyase_C; cl01593 171101005040 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 171101005041 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 171101005042 inhibitor-cofactor binding pocket; inhibition site 171101005043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101005044 catalytic residue [active] 171101005045 Bacterial sugar transferase; Region: Bac_transf; cl00939 171101005046 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101005047 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101005048 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 171101005049 Walker A/P-loop; other site 171101005050 ATP binding site [chemical binding]; other site 171101005051 Q-loop/lid; other site 171101005052 ABC transporter signature motif; other site 171101005053 Walker B; other site 171101005054 D-loop; other site 171101005055 H-loop/switch region; other site 171101005056 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101005057 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 171101005058 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005059 Walker A/P-loop; other site 171101005060 ATP binding site [chemical binding]; other site 171101005061 Q-loop/lid; other site 171101005062 ABC transporter signature motif; other site 171101005063 Walker B; other site 171101005064 D-loop; other site 171101005065 H-loop/switch region; other site 171101005066 Protein of unknown function (DUF421); Region: DUF421; cl00990 171101005067 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 171101005068 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 171101005069 active site 171101005070 DNA binding site [nucleotide binding] 171101005071 putative phosphate binding site [ion binding]; other site 171101005072 putative catalytic site [active] 171101005073 metal binding site A [ion binding]; metal-binding site 171101005074 AP binding site [nucleotide binding]; other site 171101005075 metal binding site B [ion binding]; metal-binding site 171101005076 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 171101005077 active site 171101005078 metal binding site [ion binding]; metal-binding site 171101005079 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101005080 Permease family; Region: Xan_ur_permease; cl00967 171101005081 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 171101005082 Dam-replacing family; Region: DRP; pfam06044 171101005083 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 171101005084 CoenzymeA binding site [chemical binding]; other site 171101005085 subunit interaction site [polypeptide binding]; other site 171101005086 PHB binding site; other site 171101005087 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 171101005088 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 171101005089 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 171101005090 galactokinase; Provisional; Region: PRK05322 171101005091 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 171101005092 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 171101005093 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 171101005094 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 171101005095 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101005096 DNA binding site [nucleotide binding] 171101005097 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 171101005098 putative dimerization interface [polypeptide binding]; other site 171101005099 putative ligand binding site [chemical binding]; other site 171101005100 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 171101005101 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 171101005102 catalytic Zn binding site [ion binding]; other site 171101005103 NAD(P) binding site [chemical binding]; other site 171101005104 structural Zn binding site [ion binding]; other site 171101005105 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 171101005106 DNA binding residues [nucleotide binding] 171101005107 putative dimer interface [polypeptide binding]; other site 171101005108 Cation efflux family; Region: Cation_efflux; cl00316 171101005109 Helix-turn-helix domains; Region: HTH; cl00088 171101005110 Utp21 specific WD40 associated putative domain; Region: Utp21; pfam04192 171101005111 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 171101005112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005113 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005114 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 171101005115 dimer interface [polypeptide binding]; other site 171101005116 conserved gate region; other site 171101005117 ABC-ATPase subunit interface; other site 171101005118 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 171101005119 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 171101005120 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101005121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005122 Walker A/P-loop; other site 171101005123 ATP binding site [chemical binding]; other site 171101005124 Q-loop/lid; other site 171101005125 ABC transporter signature motif; other site 171101005126 Walker B; other site 171101005127 D-loop; other site 171101005128 H-loop/switch region; other site 171101005129 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 171101005130 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 171101005131 Helix-turn-helix domains; Region: HTH; cl00088 171101005132 Enterocin A Immunity; Region: EntA_Immun; pfam08951 171101005133 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 171101005134 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 171101005135 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 171101005136 oligomer interface [polypeptide binding]; other site 171101005137 active site 171101005138 metal binding site [ion binding]; metal-binding site 171101005139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101005140 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 171101005141 NAD(P) binding site [chemical binding]; other site 171101005142 active site 171101005143 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 171101005144 ABC-ATPase subunit interface; other site 171101005145 dimer interface [polypeptide binding]; other site 171101005146 putative PBP binding regions; other site 171101005147 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 171101005148 ABC-ATPase subunit interface; other site 171101005149 dimer interface [polypeptide binding]; other site 171101005150 putative PBP binding regions; other site 171101005151 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 171101005152 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 171101005153 Walker A/P-loop; other site 171101005154 ATP binding site [chemical binding]; other site 171101005155 Q-loop/lid; other site 171101005156 ABC transporter signature motif; other site 171101005157 Walker B; other site 171101005158 D-loop; other site 171101005159 H-loop/switch region; other site 171101005160 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 171101005161 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 171101005162 putative ligand binding residues [chemical binding]; other site 171101005163 Domain of unknown function DUF37; Region: DUF37; cl00506 171101005164 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 171101005165 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 171101005166 RNA binding surface [nucleotide binding]; other site 171101005167 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 171101005168 active site 171101005169 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 171101005170 ScpA/B protein; Region: ScpA_ScpB; cl00598 171101005171 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 171101005172 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 171101005173 DNA binding site [nucleotide binding] 171101005174 Int/Topo IB signature motif; other site 171101005175 active site 171101005176 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 171101005177 FOG: CBS domain [General function prediction only]; Region: COG0517 171101005178 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 171101005179 active site 171101005180 metal binding site [ion binding]; metal-binding site 171101005181 homotetramer interface [polypeptide binding]; other site 171101005182 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 171101005183 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 171101005184 active site 171101005185 dimerization interface [polypeptide binding]; other site 171101005186 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 171101005187 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 171101005188 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 171101005189 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 171101005190 Ca binding site [ion binding]; other site 171101005191 active site 171101005192 catalytic site [active] 171101005193 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 171101005194 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 171101005195 active site turn [active] 171101005196 phosphorylation site [posttranslational modification] 171101005197 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101005198 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 171101005199 HPr interaction site; other site 171101005200 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101005201 active site 171101005202 phosphorylation site [posttranslational modification] 171101005203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101005204 DNA-binding site [nucleotide binding]; DNA binding site 171101005205 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 171101005206 UTRA domain; Region: UTRA; cl01230 171101005207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005208 Transposase; Region: DDE_Tnp_ISL3; pfam01610 171101005209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005210 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 171101005211 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 171101005212 Walker A/P-loop; other site 171101005213 ATP binding site [chemical binding]; other site 171101005214 Q-loop/lid; other site 171101005215 ABC transporter signature motif; other site 171101005216 Walker B; other site 171101005217 D-loop; other site 171101005218 H-loop/switch region; other site 171101005219 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 171101005220 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 171101005221 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 171101005222 Walker A/P-loop; other site 171101005223 ATP binding site [chemical binding]; other site 171101005224 Q-loop/lid; other site 171101005225 ABC transporter signature motif; other site 171101005226 Walker B; other site 171101005227 D-loop; other site 171101005228 H-loop/switch region; other site 171101005229 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 171101005230 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 171101005231 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 171101005232 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 171101005233 dimer interface [polypeptide binding]; other site 171101005234 conserved gate region; other site 171101005235 putative PBP binding loops; other site 171101005236 ABC-ATPase subunit interface; other site 171101005237 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 171101005238 dimer interface [polypeptide binding]; other site 171101005239 conserved gate region; other site 171101005240 putative PBP binding loops; other site 171101005241 ABC-ATPase subunit interface; other site 171101005242 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 171101005243 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 171101005244 peptide binding site [polypeptide binding]; other site 171101005245 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 171101005246 O-Antigen ligase; Region: Wzy_C; cl04850 171101005247 sucrose phosphorylase; Provisional; Region: PRK13840 171101005248 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 171101005249 active site 171101005250 homodimer interface [polypeptide binding]; other site 171101005251 catalytic site [active] 171101005252 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 171101005253 dimer interface [polypeptide binding]; other site 171101005254 conserved gate region; other site 171101005255 putative PBP binding loops; other site 171101005256 ABC-ATPase subunit interface; other site 171101005257 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 171101005258 dimer interface [polypeptide binding]; other site 171101005259 conserved gate region; other site 171101005260 putative PBP binding loops; other site 171101005261 ABC-ATPase subunit interface; other site 171101005262 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101005263 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 171101005264 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 171101005265 catalytic site [active] 171101005266 Cupin domain; Region: Cupin_2; cl09118 171101005267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101005268 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 171101005269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101005270 Helix-turn-helix domains; Region: HTH; cl00088 171101005271 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 171101005272 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 171101005273 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 171101005274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005276 TRAM domain; Region: TRAM; cl01282 171101005277 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 171101005278 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101005279 RecX family; Region: RecX; cl00936 171101005280 Protein of unknown function (DUF402); Region: DUF402; cl00979 171101005281 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101005282 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005283 Transposase; Region: DDE_Tnp_ISL3; pfam01610 171101005284 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 171101005285 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 171101005286 ring oligomerisation interface [polypeptide binding]; other site 171101005287 ATP/Mg binding site [chemical binding]; other site 171101005288 stacking interactions; other site 171101005289 hinge regions; other site 171101005290 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 171101005291 oligomerisation interface [polypeptide binding]; other site 171101005292 mobile loop; other site 171101005293 roof hairpin; other site 171101005294 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 171101005295 dimer interface [polypeptide binding]; other site 171101005296 ssDNA binding site [nucleotide binding]; other site 171101005297 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101005298 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 171101005299 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 171101005300 putative NAD(P) binding site [chemical binding]; other site 171101005301 homodimer interface [polypeptide binding]; other site 171101005302 homotetramer interface [polypeptide binding]; other site 171101005303 active site 171101005304 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 171101005305 putative tRNA-binding site [nucleotide binding]; other site 171101005306 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 171101005307 catalytic residues [active] 171101005308 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101005309 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 171101005310 LytTr DNA-binding domain; Region: LytTR; cl04498 171101005311 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 171101005312 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 171101005313 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005314 Walker A/P-loop; other site 171101005315 ATP binding site [chemical binding]; other site 171101005316 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 171101005317 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 171101005318 Walker A/P-loop; other site 171101005319 ATP binding site [chemical binding]; other site 171101005320 Q-loop/lid; other site 171101005321 ABC transporter signature motif; other site 171101005322 Walker B; other site 171101005323 D-loop; other site 171101005324 H-loop/switch region; other site 171101005325 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101005326 Helix-turn-helix domains; Region: HTH; cl00088 171101005327 Transcriptional regulator; Region: Transcrip_reg; cl00361 171101005328 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 171101005329 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 171101005330 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101005331 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 171101005332 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 171101005333 non-specific DNA binding site [nucleotide binding]; other site 171101005334 salt bridge; other site 171101005335 sequence-specific DNA binding site [nucleotide binding]; other site 171101005336 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101005337 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 171101005338 amidase catalytic site [active] 171101005339 Zn binding residues [ion binding]; other site 171101005340 substrate binding site [chemical binding]; other site 171101005341 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005342 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005343 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 171101005344 MatE; Region: MatE; cl10513 171101005345 MatE; Region: MatE; cl10513 171101005346 recombinase A; Provisional; Region: recA; PRK09354 171101005347 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 171101005348 hexamer interface [polypeptide binding]; other site 171101005349 Walker A motif; other site 171101005350 ATP binding site [chemical binding]; other site 171101005351 Walker B motif; other site 171101005352 competence damage-inducible protein A; Provisional; Region: PRK00549 171101005353 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 171101005354 putative MPT binding site; other site 171101005355 Competence-damaged protein; Region: CinA; cl00666 171101005356 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 171101005357 putative acetyltransferase YhhY; Provisional; Region: PRK10140 171101005358 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101005359 Coenzyme A binding pocket [chemical binding]; other site 171101005360 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 171101005361 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101005362 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 171101005363 non-specific DNA binding site [nucleotide binding]; other site 171101005364 salt bridge; other site 171101005365 sequence-specific DNA binding site [nucleotide binding]; other site 171101005366 type 2 lantibiotic, SP_1948 family; Region: lant_SP_1948; TIGR03893 171101005367 type 2 lantibiotic, SP_1948 family; Region: lant_SP_1948; TIGR03893 171101005368 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 171101005369 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 171101005370 active site 171101005371 zinc binding site [ion binding]; other site 171101005372 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 171101005373 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 171101005374 active site 171101005375 putative substrate binding region [chemical binding]; other site 171101005376 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 171101005377 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 bacteriocins; Region: Peptidase_C39F; cd02425 171101005378 putative active site [active] 171101005379 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101005380 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005381 Walker A/P-loop; other site 171101005382 ATP binding site [chemical binding]; other site 171101005383 Q-loop/lid; other site 171101005384 ABC transporter signature motif; other site 171101005385 Walker B; other site 171101005386 D-loop; other site 171101005387 H-loop/switch region; other site 171101005388 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 171101005389 active site 171101005390 catalytic triad [active] 171101005391 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 171101005392 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 171101005393 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101005394 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101005395 Walker A/P-loop; other site 171101005396 ATP binding site [chemical binding]; other site 171101005397 Q-loop/lid; other site 171101005398 ABC transporter signature motif; other site 171101005399 Walker B; other site 171101005400 D-loop; other site 171101005401 H-loop/switch region; other site 171101005402 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 171101005403 active site 171101005404 multimer interface [polypeptide binding]; other site 171101005405 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 171101005406 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 171101005407 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 171101005408 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 171101005409 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 171101005410 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 171101005411 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 171101005412 G-loop; other site 171101005413 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 171101005414 DNA binding site [nucleotide binding] 171101005415 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 171101005416 DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; Region: RpoB; COG0085 171101005417 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 171101005418 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 171101005419 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 171101005420 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 171101005421 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 171101005422 RPB1 interaction site [polypeptide binding]; other site 171101005423 RPB10 interaction site [polypeptide binding]; other site 171101005424 RPB11 interaction site [polypeptide binding]; other site 171101005425 RPB3 interaction site [polypeptide binding]; other site 171101005426 RPB12 interaction site [polypeptide binding]; other site 171101005427 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 171101005428 Domain of unknown function DUF21; Region: DUF21; pfam01595 171101005429 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 171101005430 Transporter associated domain; Region: CorC_HlyC; cl08393 171101005431 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 171101005432 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 171101005433 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 171101005434 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 171101005435 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 171101005436 hinge; other site 171101005437 active site 171101005438 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 171101005439 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 171101005440 protein binding site [polypeptide binding]; other site 171101005441 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 171101005442 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 171101005443 active site 171101005444 (T/H)XGH motif; other site 171101005445 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 171101005446 S-adenosylmethionine binding site [chemical binding]; other site 171101005447 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 171101005448 dimer interface [polypeptide binding]; other site 171101005449 active site 171101005450 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 171101005451 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 171101005452 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 171101005453 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 171101005454 Acylphosphatase; Region: Acylphosphatase; cl00551 171101005455 OxaA-like protein precursor; Provisional; Region: PRK02463 171101005456 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 171101005457 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 171101005458 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 171101005459 FeS/SAM binding site; other site 171101005460 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 171101005461 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 171101005462 active site 171101005463 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101005464 substrate binding site [chemical binding]; other site 171101005465 catalytic residues [active] 171101005466 dimer interface [polypeptide binding]; other site 171101005467 pur operon repressor; Provisional; Region: PRK09213 171101005468 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 171101005469 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101005470 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 171101005471 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 inactive in...; Region: YhaM_OBF_like; cd04492 171101005472 generic binding surface II; other site 171101005473 generic binding surface I; other site 171101005474 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 171101005475 Zn2+ binding site [ion binding]; other site 171101005476 Mg2+ binding site [ion binding]; other site 171101005477 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 171101005478 RmuC family; Region: RmuC; pfam02646 171101005479 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 171101005480 Thiamine pyrophosphokinase; Region: TPK; cd07995 171101005481 active site 171101005482 dimerization interface [polypeptide binding]; other site 171101005483 thiamine binding site [chemical binding]; other site 171101005484 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 171101005485 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 171101005486 substrate binding site [chemical binding]; other site 171101005487 hexamer interface [polypeptide binding]; other site 171101005488 metal binding site [ion binding]; metal-binding site 171101005489 GTPase RsgA; Reviewed; Region: PRK00098 171101005490 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 171101005491 RNA binding site [nucleotide binding]; other site 171101005492 homodimer interface [polypeptide binding]; other site 171101005493 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 171101005494 GTPase/Zn-binding domain interface [polypeptide binding]; other site 171101005495 GTP/Mg2+ binding site [chemical binding]; other site 171101005496 G4 box; other site 171101005497 G5 box; other site 171101005498 G1 box; other site 171101005499 Switch I region; other site 171101005500 G2 box; other site 171101005501 G3 box; other site 171101005502 Switch II region; other site 171101005503 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101005504 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 171101005505 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101005506 Walker A/P-loop; other site 171101005507 ATP binding site [chemical binding]; other site 171101005508 Q-loop/lid; other site 171101005509 ABC transporter signature motif; other site 171101005510 Walker B; other site 171101005511 D-loop; other site 171101005512 H-loop/switch region; other site 171101005513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 171101005514 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 171101005515 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101005516 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 171101005517 non-specific DNA binding site [nucleotide binding]; other site 171101005518 salt bridge; other site 171101005519 sequence-specific DNA binding site [nucleotide binding]; other site 171101005520 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 171101005521 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 171101005522 putative active site [active] 171101005523 putative metal binding site [ion binding]; other site 171101005524 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 171101005525 active site 171101005526 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 171101005527 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 171101005528 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 171101005529 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 171101005530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101005531 homodimer interface [polypeptide binding]; other site 171101005532 catalytic residue [active] 171101005533 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 171101005534 Ligand Binding Site [chemical binding]; other site 171101005535 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 171101005536 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 171101005537 active site 171101005538 motif I; other site 171101005539 motif II; other site 171101005540 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 171101005541 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 171101005542 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 171101005543 active site 171101005544 homotetramer interface [polypeptide binding]; other site 171101005545 homodimer interface [polypeptide binding]; other site 171101005546 catabolite control protein A; Region: ccpA; TIGR01481 171101005547 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101005548 DNA binding site [nucleotide binding] 171101005549 domain linker motif; other site 171101005550 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 171101005551 dimerization interface [polypeptide binding]; other site 171101005552 effector binding site; other site 171101005553 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 171101005554 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 171101005555 active site 171101005556 phosphorylation site [posttranslational modification] 171101005557 intermolecular recognition site; other site 171101005558 dimerization interface [polypeptide binding]; other site 171101005559 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 171101005560 DNA binding residues [nucleotide binding] 171101005561 dimerization interface [polypeptide binding]; other site 171101005562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 171101005563 Histidine kinase; Region: HisKA_3; pfam07730 171101005564 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 171101005565 ABC-2 type transporter; Region: ABC2_membrane; cl11417 171101005566 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 171101005567 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 171101005568 Walker A/P-loop; other site 171101005569 ATP binding site [chemical binding]; other site 171101005570 Q-loop/lid; other site 171101005571 ABC transporter signature motif; other site 171101005572 Walker B; other site 171101005573 D-loop; other site 171101005574 H-loop/switch region; other site 171101005575 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 171101005576 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 171101005577 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 171101005578 putative homodimer interface [polypeptide binding]; other site 171101005579 KOW motif; Region: KOW; cl00354 171101005580 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 171101005581 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 171101005582 Transglycosylase; Region: Transgly; cl07896 171101005583 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 171101005584 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 171101005585 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 171101005586 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 171101005587 active site 171101005588 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 171101005589 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 171101005590 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 171101005591 FtsX-like permease family; Region: FtsX; pfam02687 171101005592 Integrase core domain; Region: rve; cl01316 171101005593 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101005594 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 171101005595 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 171101005596 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 171101005597 dimerization interface [polypeptide binding]; other site 171101005598 active site 171101005599 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 171101005600 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; cl15357 171101005601 transmembrane helices; other site 171101005602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005603 Walker A/P-loop; other site 171101005604 ATP binding site [chemical binding]; other site 171101005605 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 171101005606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101005607 DNA-binding site [nucleotide binding]; DNA binding site 171101005608 UTRA domain; Region: UTRA; cl01230 171101005609 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 171101005610 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 171101005611 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 171101005612 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 171101005613 active site 171101005614 P-loop; other site 171101005615 phosphorylation site [posttranslational modification] 171101005616 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 171101005617 methionine cluster; other site 171101005618 active site 171101005619 phosphorylation site [posttranslational modification] 171101005620 metal binding site [ion binding]; metal-binding site 171101005621 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 171101005622 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 171101005623 putative catalytic cysteine [active] 171101005624 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 171101005625 putative active site [active] 171101005626 metal binding site [ion binding]; metal-binding site 171101005627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 171101005628 MORN repeat; Region: MORN; cl14787 171101005629 Low molecular weight phosphatase family; Region: LMWPc; cd00115 171101005630 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 171101005631 active site 171101005632 Preprotein translocase subunit; Region: YajC; cl00806 171101005633 transketolase; Reviewed; Region: PRK05899 171101005634 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 171101005635 TPP-binding site [chemical binding]; other site 171101005636 dimer interface [polypeptide binding]; other site 171101005637 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 171101005638 PYR/PP interface [polypeptide binding]; other site 171101005639 dimer interface [polypeptide binding]; other site 171101005640 TPP binding site [chemical binding]; other site 171101005641 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 171101005642 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 171101005643 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101005644 PRD domain; Region: PRD; cl15445 171101005645 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 171101005646 P-loop; other site 171101005647 active site 171101005648 phosphorylation site [posttranslational modification] 171101005649 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 171101005650 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 171101005651 intersubunit interface [polypeptide binding]; other site 171101005652 active site 171101005653 Zn2+ binding site [ion binding]; other site 171101005654 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 171101005655 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 171101005656 AP (apurinic/apyrimidinic) site pocket; other site 171101005657 DNA interaction; other site 171101005658 Metal-binding active site; metal-binding site 171101005659 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 171101005660 active site 171101005661 dimer interface [polypeptide binding]; other site 171101005662 magnesium binding site [ion binding]; other site 171101005663 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 171101005664 active site 171101005665 phosphorylation site [posttranslational modification] 171101005666 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 171101005667 P-loop; other site 171101005668 active site 171101005669 phosphorylation site [posttranslational modification] 171101005670 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 171101005671 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 171101005672 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 171101005673 G-X-X-G motif; other site 171101005674 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 171101005675 RxxxH motif; other site 171101005676 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 171101005677 Ribonuclease P; Region: Ribonuclease_P; cl00457 171101005678 Acetokinase family; Region: Acetate_kinase; cl01029 171101005679 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101005680 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 171101005681 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 171101005682 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 171101005683 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 171101005684 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 171101005685 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005686 Walker A motif; other site 171101005687 ATP binding site [chemical binding]; other site 171101005688 Walker B motif; other site 171101005689 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 171101005690 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 171101005691 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 171101005692 catalytic Zn binding site [ion binding]; other site 171101005693 structural Zn binding site [ion binding]; other site 171101005694 NAD(P) binding site [chemical binding]; other site 171101005695 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 171101005696 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 171101005697 active site 171101005698 dimer interface [polypeptide binding]; other site 171101005699 OpgC protein; Region: OpgC_C; cl00792 171101005700 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 171101005701 catalytic triad [active] 171101005702 catalytic triad [active] 171101005703 oxyanion hole [active] 171101005704 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 171101005705 Protein of unknown function (DUF975); Region: DUF975; cl10504 171101005706 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; cl00237 171101005707 interchain disulfide; other site 171101005708 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; cl00237 171101005709 AB domain interface; other site 171101005710 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 171101005711 Helix-turn-helix domains; Region: HTH; cl00088 171101005712 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 171101005713 putative peptidoglycan binding site; other site 171101005714 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 171101005715 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 171101005716 motif II; other site 171101005717 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 171101005718 MatE; Region: MatE; cl10513 171101005719 MatE; Region: MatE; cl10513 171101005720 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, cyanobacteria; Region: Thr-synth_2; cd01560 171101005721 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 171101005722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101005723 catalytic residue [active] 171101005724 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 171101005725 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 171101005726 active site 171101005727 catalytic motif [active] 171101005728 Zn binding site [ion binding]; other site 171101005729 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 171101005730 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 171101005731 active site 171101005732 HIGH motif; other site 171101005733 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 171101005734 active site 171101005735 KMSKS motif; other site 171101005736 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 171101005737 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 171101005738 active site 171101005739 dimer interface [polypeptide binding]; other site 171101005740 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 171101005741 dimer interface [polypeptide binding]; other site 171101005742 active site 171101005743 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 171101005744 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 171101005745 catalytic triad [active] 171101005746 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101005747 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101005748 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 171101005749 Walker A/P-loop; other site 171101005750 ATP binding site [chemical binding]; other site 171101005751 Q-loop/lid; other site 171101005752 ABC transporter signature motif; other site 171101005753 Walker B; other site 171101005754 D-loop; other site 171101005755 H-loop/switch region; other site 171101005756 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 171101005757 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101005758 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 171101005759 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101005760 Walker A/P-loop; other site 171101005761 ATP binding site [chemical binding]; other site 171101005762 Q-loop/lid; other site 171101005763 ABC transporter signature motif; other site 171101005764 Walker B; other site 171101005765 D-loop; other site 171101005766 H-loop/switch region; other site 171101005767 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 171101005768 MutS domain I; Region: MutS_I; pfam01624 171101005769 MutS domain II; Region: MutS_II; pfam05188 171101005770 MutS family domain IV; Region: MutS_IV; pfam05190 171101005771 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 171101005772 Walker A/P-loop; other site 171101005773 ATP binding site [chemical binding]; other site 171101005774 Q-loop/lid; other site 171101005775 ABC transporter signature motif; other site 171101005776 Walker B; other site 171101005777 D-loop; other site 171101005778 H-loop/switch region; other site 171101005779 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 171101005780 arginine repressor; Region: argR_whole; TIGR01529 171101005781 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 171101005782 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 171101005783 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 171101005784 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 171101005785 active site 171101005786 HIGH motif; other site 171101005787 KMSK motif region; other site 171101005788 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 171101005789 tRNA binding surface [nucleotide binding]; other site 171101005790 anticodon binding site; other site 171101005791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101005792 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 171101005793 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101005794 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 171101005795 active site 171101005796 phosphorylation site [posttranslational modification] 171101005797 intermolecular recognition site; other site 171101005798 dimerization interface [polypeptide binding]; other site 171101005799 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 171101005800 DNA binding site [nucleotide binding] 171101005801 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 171101005802 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 171101005803 dimer interface [polypeptide binding]; other site 171101005804 phosphorylation site [posttranslational modification] 171101005805 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 171101005806 ATP binding site [chemical binding]; other site 171101005807 G-X-G motif; other site 171101005808 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101005809 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101005810 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 171101005811 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 171101005812 dimer interface [polypeptide binding]; other site 171101005813 conserved gate region; other site 171101005814 putative PBP binding loops; other site 171101005815 ABC-ATPase subunit interface; other site 171101005816 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 171101005817 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 171101005818 dimer interface [polypeptide binding]; other site 171101005819 conserved gate region; other site 171101005820 putative PBP binding loops; other site 171101005821 ABC-ATPase subunit interface; other site 171101005822 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 171101005823 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 171101005824 Walker A/P-loop; other site 171101005825 ATP binding site [chemical binding]; other site 171101005826 Q-loop/lid; other site 171101005827 ABC transporter signature motif; other site 171101005828 Walker B; other site 171101005829 D-loop; other site 171101005830 H-loop/switch region; other site 171101005831 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 171101005832 PhoU domain; Region: PhoU; pfam01895 171101005833 PhoU domain; Region: PhoU; pfam01895 171101005834 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 171101005835 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 171101005836 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 171101005837 non-specific DNA binding site [nucleotide binding]; other site 171101005838 salt bridge; other site 171101005839 sequence-specific DNA binding site [nucleotide binding]; other site 171101005840 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 171101005841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101005842 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 171101005843 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 171101005844 active site 171101005845 tetramer interface; other site 171101005846 Rhomboid family; Region: Rhomboid; cl11446 171101005847 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 171101005848 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 171101005849 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 171101005850 metal binding site [ion binding]; metal-binding site 171101005851 putative dimer interface [polypeptide binding]; other site 171101005852 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 171101005853 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 171101005854 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 171101005855 trimer interface [polypeptide binding]; other site 171101005856 active site 171101005857 substrate binding site [chemical binding]; other site 171101005858 CoA binding site [chemical binding]; other site 171101005859 EamA-like transporter family; Region: EamA; cl01037 171101005860 Transglycosylase; Region: Transgly; cl07896 171101005861 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 171101005862 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 171101005863 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 171101005864 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 171101005865 active site 171101005866 HIGH motif; other site 171101005867 dimer interface [polypeptide binding]; other site 171101005868 KMSKS motif; other site 171101005869 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 171101005870 RNA binding surface [nucleotide binding]; other site 171101005871 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 171101005872 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101005873 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 171101005874 motif II; other site 171101005875 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 171101005876 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 171101005877 S-adenosylmethionine binding site [chemical binding]; other site 171101005878 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 171101005879 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 171101005880 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 171101005881 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 171101005882 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 171101005883 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 171101005884 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 171101005885 dimer interface [polypeptide binding]; other site 171101005886 conserved gate region; other site 171101005887 putative PBP binding loops; other site 171101005888 ABC-ATPase subunit interface; other site 171101005889 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 171101005890 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 171101005891 dimer interface [polypeptide binding]; other site 171101005892 conserved gate region; other site 171101005893 putative PBP binding loops; other site 171101005894 ABC-ATPase subunit interface; other site 171101005895 Predicted integral membrane protein [Function unknown]; Region: COG5521 171101005896 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101005897 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101005898 DNA binding site [nucleotide binding] 171101005899 domain linker motif; other site 171101005900 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 171101005901 putative dimerization interface [polypeptide binding]; other site 171101005902 putative ligand binding site [chemical binding]; other site 171101005903 Uncharacterized conserved protein [Function unknown]; Region: COG1284 171101005904 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101005905 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101005906 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 171101005907 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 171101005908 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 171101005909 dimer interface [polypeptide binding]; other site 171101005910 anticodon binding site; other site 171101005911 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 171101005912 homodimer interface [polypeptide binding]; other site 171101005913 motif 1; other site 171101005914 active site 171101005915 motif 2; other site 171101005916 GAD domain; Region: GAD; pfam02938 171101005917 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 171101005918 motif 3; other site 171101005919 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 171101005920 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 171101005921 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 171101005922 non-specific DNA binding site [nucleotide binding]; other site 171101005923 salt bridge; other site 171101005924 sequence-specific DNA binding site [nucleotide binding]; other site 171101005925 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 171101005926 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 171101005927 dimer interface [polypeptide binding]; other site 171101005928 motif 1; other site 171101005929 active site 171101005930 motif 2; other site 171101005931 motif 3; other site 171101005932 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 171101005933 anticodon binding site; other site 171101005934 Helix-turn-helix domains; Region: HTH; cl00088 171101005935 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101005936 Domain of unknown function DUF59; Region: DUF59; cl00941 171101005937 Dehydratase family; Region: ILVD_EDD; cl00340 171101005938 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 171101005939 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 171101005940 PYR/PP interface [polypeptide binding]; other site 171101005941 dimer interface [polypeptide binding]; other site 171101005942 TPP binding site [chemical binding]; other site 171101005943 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 171101005944 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 171101005945 TPP-binding site [chemical binding]; other site 171101005946 dimer interface [polypeptide binding]; other site 171101005947 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 171101005948 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 171101005949 P-loop; other site 171101005950 active site 171101005951 phosphorylation site [posttranslational modification] 171101005952 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101005953 PRD domain; Region: PRD; cl15445 171101005954 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 171101005955 P-loop; other site 171101005956 active site 171101005957 phosphorylation site [posttranslational modification] 171101005958 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 171101005959 active site 171101005960 phosphorylation site [posttranslational modification] 171101005961 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 171101005962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 171101005963 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 171101005964 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 171101005965 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101005966 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005967 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005968 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005969 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005970 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005971 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005972 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005973 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005974 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005975 Divergent AAA domain; Region: AAA_4; pfam04326 171101005976 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 171101005977 Transposase domain (DUF772); Region: DUF772; cl15789 171101005978 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 171101005979 putative active site [active] 171101005980 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101005981 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 171101005982 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 171101005983 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 171101005984 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 171101005985 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 171101005986 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 171101005987 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 171101005988 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 171101005989 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 171101005990 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; cl12042 171101005991 Amidinotransferase; Region: Amidinotransf; cl12043 171101005992 Amidinotransferase; Region: Amidinotransf; cl12043 171101005993 ornithine carbamoyltransferase; Validated; Region: PRK02102 171101005994 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 171101005995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101005996 carbamate kinase; Reviewed; Region: PRK12686 171101005997 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 171101005998 putative substrate binding site [chemical binding]; other site 171101005999 nucleotide binding site [chemical binding]; other site 171101006000 nucleotide binding site [chemical binding]; other site 171101006001 homodimer interface [polypeptide binding]; other site 171101006002 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 171101006003 hypothetical protein; Provisional; Region: PRK07205 171101006004 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 171101006005 active site 171101006006 metal binding site [ion binding]; metal-binding site 171101006007 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 171101006008 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 171101006009 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 171101006010 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 171101006011 dimer interface [polypeptide binding]; other site 171101006012 active site 171101006013 metal binding site [ion binding]; metal-binding site 171101006014 L-fucose isomerase; Provisional; Region: fucI; PRK10991 171101006015 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 171101006016 hexamer (dimer of trimers) interface [polypeptide binding]; other site 171101006017 trimer interface [polypeptide binding]; other site 171101006018 substrate binding site [chemical binding]; other site 171101006019 Mn binding site [ion binding]; other site 171101006020 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 171101006021 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 171101006022 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; cl12042 171101006023 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; cl12042 171101006024 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; cl12042 171101006025 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 171101006026 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 171101006027 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 171101006028 active site 171101006029 phosphorylation site [posttranslational modification] 171101006030 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 171101006031 active pocket/dimerization site; other site 171101006032 active site 171101006033 phosphorylation site [posttranslational modification] 171101006034 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 171101006035 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 171101006036 intersubunit interface [polypeptide binding]; other site 171101006037 active site 171101006038 Zn2+ binding site [ion binding]; other site 171101006039 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 171101006040 N- and C-terminal domain interface [polypeptide binding]; other site 171101006041 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 171101006042 active site 171101006043 catalytic site [active] 171101006044 metal binding site [ion binding]; metal-binding site 171101006045 ATP binding site [chemical binding]; other site 171101006046 carbohydrate binding site [chemical binding]; other site 171101006047 Helix-turn-helix domains; Region: HTH; cl00088 171101006048 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 171101006049 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 171101006050 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 171101006051 metal binding site [ion binding]; metal-binding site 171101006052 YodA lipocalin-like domain; Region: YodA; cl01365 171101006053 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 171101006054 ABC-ATPase subunit interface; other site 171101006055 dimer interface [polypeptide binding]; other site 171101006056 putative PBP binding regions; other site 171101006057 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101006058 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 171101006059 Helix-turn-helix domains; Region: HTH; cl00088 171101006060 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 171101006061 DltD N-terminal region; Region: DltD_N; pfam04915 171101006062 DltD central region; Region: DltD_M; pfam04918 171101006063 DltD C-terminal region; Region: DltD_C; pfam04914 171101006064 Phosphopantetheine attachment site; Region: PP-binding; cl09936 171101006065 MBOAT family; Region: MBOAT; cl00738 171101006066 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 171101006067 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 171101006068 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 171101006069 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101006070 putative substrate translocation pore; other site 171101006071 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 171101006072 putative active site [active] 171101006073 putative NTP binding site [chemical binding]; other site 171101006074 putative nucleic acid binding site [nucleotide binding]; other site 171101006075 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 171101006076 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 171101006077 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 171101006078 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 171101006079 amphipathic channel; other site 171101006080 Asn-Pro-Ala signature motifs; other site 171101006081 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 171101006082 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 171101006083 glycerol kinase; Provisional; Region: glpK; PRK00047 171101006084 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 171101006085 N- and C-terminal domain interface [polypeptide binding]; other site 171101006086 active site 171101006087 MgATP binding site [chemical binding]; other site 171101006088 catalytic site [active] 171101006089 metal binding site [ion binding]; metal-binding site 171101006090 glycerol binding site [chemical binding]; other site 171101006091 homotetramer interface [polypeptide binding]; other site 171101006092 homodimer interface [polypeptide binding]; other site 171101006093 FBP binding site [chemical binding]; other site 171101006094 protein IIAGlc interface [polypeptide binding]; other site 171101006095 Helix-turn-helix domains; Region: HTH; cl00088 171101006096 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 171101006097 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 171101006098 dimerization interface [polypeptide binding]; other site 171101006099 domain crossover interface; other site 171101006100 redox-dependent activation switch; other site 171101006101 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 171101006102 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 171101006103 FMN binding site [chemical binding]; other site 171101006104 active site 171101006105 catalytic residues [active] 171101006106 substrate binding site [chemical binding]; other site 171101006107 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 171101006108 RICH domain; Region: RICH; pfam05062 171101006109 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006110 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006111 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006112 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006113 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006114 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006115 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 171101006116 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006117 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006118 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 171101006119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101006120 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 171101006121 dimerization interface [polypeptide binding]; other site 171101006122 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 171101006123 dimer interface [polypeptide binding]; other site 171101006124 phosphorylation site [posttranslational modification] 171101006125 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 171101006126 ATP binding site [chemical binding]; other site 171101006127 Mg2+ binding site [ion binding]; other site 171101006128 G-X-G motif; other site 171101006129 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101006130 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 171101006131 active site 171101006132 phosphorylation site [posttranslational modification] 171101006133 intermolecular recognition site; other site 171101006134 dimerization interface [polypeptide binding]; other site 171101006135 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 171101006136 DNA binding site [nucleotide binding] 171101006137 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 171101006138 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 171101006139 Clp amino terminal domain; Region: Clp_N; pfam02861 171101006140 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 171101006141 Walker A motif; other site 171101006142 ATP binding site [chemical binding]; other site 171101006143 Walker B motif; other site 171101006144 arginine finger; other site 171101006145 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 171101006146 Walker A motif; other site 171101006147 ATP binding site [chemical binding]; other site 171101006148 Walker B motif; other site 171101006149 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 171101006150 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 171101006151 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 171101006152 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 171101006153 Walker A/P-loop; other site 171101006154 ATP binding site [chemical binding]; other site 171101006155 Q-loop/lid; other site 171101006156 ABC transporter signature motif; other site 171101006157 Walker B; other site 171101006158 D-loop; other site 171101006159 H-loop/switch region; other site 171101006160 NMT1/THI5 like; Region: NMT1; pfam09084 171101006161 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 171101006162 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 171101006163 Domain of unknown function DUF77; Region: DUF77; cl00307 171101006164 Surface antigen [General function prediction only]; Region: COG3942 171101006165 NlpC/P60 family; Region: NLPC_P60; cl11438 171101006166 Bacterial SH3 domain; Region: SH3_3; cl02551 171101006167 Bacterial SH3 domain; Region: SH3_3; cl02551 171101006168 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006169 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006170 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 171101006171 replicative DNA helicase; Provisional; Region: PRK05748 171101006172 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 171101006173 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 171101006174 Walker A motif; other site 171101006175 ATP binding site [chemical binding]; other site 171101006176 Walker B motif; other site 171101006177 DNA binding loops [nucleotide binding] 171101006178 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 171101006179 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 171101006180 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 171101006181 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 171101006182 DHH family; Region: DHH; pfam01368 171101006183 DHHA1 domain; Region: DHHA1; pfam02272 171101006184 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 171101006185 30S subunit binding site; other site 171101006186 comF family protein; Region: comF; TIGR00201 171101006187 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 171101006188 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 171101006189 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 171101006190 ATP binding site [chemical binding]; other site 171101006191 putative Mg++ binding site [ion binding]; other site 171101006192 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 171101006193 nucleotide binding region [chemical binding]; other site 171101006194 ATP-binding site [chemical binding]; other site 171101006195 Uncharacterized conserved protein [Function unknown]; Region: COG1739 171101006196 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 171101006197 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 171101006198 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 171101006199 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 171101006200 dimer interface [polypeptide binding]; other site 171101006201 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101006202 catalytic residue [active] 171101006203 Integrase core domain; Region: rve; cl01316 171101006204 Integrase core domain; Region: rve; cl01316 171101006205 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 171101006206 elongation factor Ts; Provisional; Region: tsf; PRK09377 171101006207 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 171101006208 Elongation factor TS; Region: EF_TS; pfam00889 171101006209 Elongation factor TS; Region: EF_TS; pfam00889 171101006210 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 171101006211 rRNA interaction site [nucleotide binding]; other site 171101006212 S8 interaction site; other site 171101006213 putative laminin-1 binding site; other site 171101006214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 171101006215 Septum formation initiator; Region: DivIC; cl11433 171101006216 NlpC/P60 family; Region: NLPC_P60; cl11438 171101006217 rod shape-determining protein MreD; Region: MreD; cl01087 171101006218 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 171101006219 rod shape-determining protein MreC; Region: MreC; pfam04085 171101006220 Cobalt transport protein; Region: CbiQ; cl00463 171101006221 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 171101006222 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 171101006223 Walker A/P-loop; other site 171101006224 ATP binding site [chemical binding]; other site 171101006225 Q-loop/lid; other site 171101006226 ABC transporter signature motif; other site 171101006227 Walker B; other site 171101006228 D-loop; other site 171101006229 H-loop/switch region; other site 171101006230 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 171101006231 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 171101006232 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 171101006233 Walker A/P-loop; other site 171101006234 ATP binding site [chemical binding]; other site 171101006235 Q-loop/lid; other site 171101006236 ABC transporter signature motif; other site 171101006237 Walker B; other site 171101006238 D-loop; other site 171101006239 H-loop/switch region; other site 171101006240 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 171101006241 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 171101006242 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 171101006243 Helix-turn-helix domains; Region: HTH; cl00088 171101006244 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 171101006245 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 171101006246 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 171101006247 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 171101006248 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 171101006249 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 171101006250 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 171101006251 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 171101006252 Walker A/P-loop; other site 171101006253 ATP binding site [chemical binding]; other site 171101006254 Q-loop/lid; other site 171101006255 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101006256 ABC transporter signature motif; other site 171101006257 Walker B; other site 171101006258 D-loop; other site 171101006259 H-loop/switch region; other site 171101006260 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 171101006261 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 171101006262 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 171101006263 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 171101006264 active site 171101006265 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 171101006266 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 171101006267 active site 171101006268 HIGH motif; other site 171101006269 dimer interface [polypeptide binding]; other site 171101006270 KMSKS motif; other site 171101006271 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 171101006272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 171101006273 Walker A/P-loop; other site 171101006274 ATP binding site [chemical binding]; other site 171101006275 Q-loop/lid; other site 171101006276 ABC transporter signature motif; other site 171101006277 Walker B; other site 171101006278 D-loop; other site 171101006279 H-loop/switch region; other site 171101006280 ABC transporter; Region: ABC_tran_2; pfam12848 171101006281 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 171101006282 Predicted membrane protein [Function unknown]; Region: COG4485 171101006283 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 171101006284 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 171101006285 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 171101006286 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 171101006287 Helix-turn-helix domains; Region: HTH; cl00088 171101006288 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 171101006289 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 171101006290 active site 171101006291 phosphorylation site [posttranslational modification] 171101006292 intermolecular recognition site; other site 171101006293 dimerization interface [polypeptide binding]; other site 171101006294 LytTr DNA-binding domain; Region: LytTR; cl04498 171101006295 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 171101006296 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 171101006297 COMC family; Region: ComC; pfam03047 171101006298 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 171101006299 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 171101006300 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 171101006301 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 171101006302 protein binding site [polypeptide binding]; other site 171101006303 ParB-like partition proteins; Region: parB_part; TIGR00180 171101006304 ParB-like nuclease domain; Region: ParBc; cl02129 171101006305 KorB domain; Region: KorB; pfam08535