-- dump date 20140620_084929 -- class Genbank::misc_feature -- table misc_feature_note -- id note 171101000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 171101000002 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 171101000003 Walker A motif; other site 171101000004 ATP binding site [chemical binding]; other site 171101000005 Walker B motif; other site 171101000006 arginine finger; other site 171101000007 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 171101000008 DnaA box-binding interface [nucleotide binding]; other site 171101000009 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 171101000010 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 171101000011 putative DNA binding surface [nucleotide binding]; other site 171101000012 dimer interface [polypeptide binding]; other site 171101000013 beta-clamp/clamp loader binding surface; other site 171101000014 beta-clamp/translesion DNA polymerase binding surface; other site 171101000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 171101000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 171101000017 YchF GTPase; Region: YchF; cd01900 171101000018 G1 box; other site 171101000019 GTP/Mg2+ binding site [chemical binding]; other site 171101000020 Switch I region; other site 171101000021 G2 box; other site 171101000022 Switch II region; other site 171101000023 G3 box; other site 171101000024 G4 box; other site 171101000025 G5 box; other site 171101000026 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 171101000027 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 171101000028 putative active site [active] 171101000029 catalytic residue [active] 171101000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 171101000031 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 171101000032 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 171101000033 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 171101000034 ATP binding site [chemical binding]; other site 171101000035 putative Mg++ binding site [ion binding]; other site 171101000036 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 171101000037 nucleotide binding region [chemical binding]; other site 171101000038 ATP-binding site [chemical binding]; other site 171101000039 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 171101000040 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 171101000041 RNA binding surface [nucleotide binding]; other site 171101000042 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 171101000043 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 171101000044 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 171101000045 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 171101000046 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 171101000047 Ligand Binding Site [chemical binding]; other site 171101000048 TilS substrate C-terminal domain; Region: TilS_C; smart00977 171101000049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101000050 active site 171101000051 FtsH Extracellular; Region: FtsH_ext; pfam06480 171101000052 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 171101000053 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 171101000054 Walker A motif; other site 171101000055 ATP binding site [chemical binding]; other site 171101000056 Walker B motif; other site 171101000057 arginine finger; other site 171101000058 Peptidase family M41; Region: Peptidase_M41; pfam01434 171101000059 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 171101000060 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101000061 Winged helix-turn helix; Region: HTH_29; pfam13551 171101000062 DDE superfamily endonuclease; Region: DDE_3; pfam13358 171101000063 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 171101000064 GDP-binding site [chemical binding]; other site 171101000065 ACT binding site; other site 171101000066 IMP binding site; other site 171101000067 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 171101000068 nucleoside/Zn binding site; other site 171101000069 dimer interface [polypeptide binding]; other site 171101000070 catalytic motif [active] 171101000071 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 171101000072 trimer interface [polypeptide binding]; other site 171101000073 active site 171101000074 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 171101000075 catalytic core [active] 171101000076 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 171101000077 DNA repair protein RadA; Provisional; Region: PRK11823 171101000078 Walker A motif; other site 171101000079 ATP binding site [chemical binding]; other site 171101000080 Walker B motif; other site 171101000081 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 171101000082 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 171101000083 active site clefts [active] 171101000084 zinc binding site [ion binding]; other site 171101000085 dimer interface [polypeptide binding]; other site 171101000086 Protease prsW family; Region: PrsW-protease; cl15823 171101000087 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 171101000088 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 171101000089 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101000090 active site 171101000091 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 171101000092 DNA polymerase I; Provisional; Region: PRK05755 171101000093 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 171101000094 active site 171101000095 metal binding site 1 [ion binding]; metal-binding site 171101000096 putative 5' ssDNA interaction site; other site 171101000097 metal binding site 3; metal-binding site 171101000098 metal binding site 2 [ion binding]; metal-binding site 171101000099 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 171101000100 putative DNA binding site [nucleotide binding]; other site 171101000101 putative metal binding site [ion binding]; other site 171101000102 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 171101000103 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 171101000104 active site 171101000105 DNA binding site [nucleotide binding] 171101000106 catalytic site [active] 171101000107 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 171101000108 Predicted membrane protein [Function unknown]; Region: COG2855 171101000109 aminotransferase A; Validated; Region: PRK07683 171101000110 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 171101000111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101000112 homodimer interface [polypeptide binding]; other site 171101000113 catalytic residue [active] 171101000114 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 171101000115 Recombination protein O N terminal; Region: RecO_N; pfam11967 171101000116 Recombination protein O C terminal; Region: RecO_C; pfam02565 171101000117 putative phosphate acyltransferase; Provisional; Region: PRK05331 171101000118 Phosphopantetheine attachment site; Region: PP-binding; cl09936 171101000119 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 171101000120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101000121 Transposase; Region: DDE_Tnp_ISL3; pfam01610 171101000122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101000123 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 171101000124 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 171101000125 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 171101000126 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 171101000127 putative active site [active] 171101000128 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101000129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101000130 Walker A/P-loop; other site 171101000131 ATP binding site [chemical binding]; other site 171101000132 Q-loop/lid; other site 171101000133 ABC transporter signature motif; other site 171101000134 Walker B; other site 171101000135 D-loop; other site 171101000136 H-loop/switch region; other site 171101000137 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 171101000138 HlyD family secretion protein; Region: HlyD_3; pfam13437 171101000139 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 171101000140 ATP binding site [chemical binding]; other site 171101000141 active site 171101000142 substrate binding site [chemical binding]; other site 171101000143 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 171101000144 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 171101000145 dimerization interface [polypeptide binding]; other site 171101000146 ATP binding site [chemical binding]; other site 171101000147 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 171101000148 dimerization interface [polypeptide binding]; other site 171101000149 ATP binding site [chemical binding]; other site 171101000150 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 171101000151 putative active site [active] 171101000152 catalytic triad [active] 171101000153 amidophosphoribosyltransferase; Provisional; Region: PRK07272 171101000154 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 171101000155 active site 171101000156 tetramer interface [polypeptide binding]; other site 171101000157 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101000158 active site 171101000159 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 171101000160 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 171101000161 dimerization interface [polypeptide binding]; other site 171101000162 putative ATP binding site [chemical binding]; other site 171101000163 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 171101000164 active site 171101000165 substrate binding site [chemical binding]; other site 171101000166 cosubstrate binding site; other site 171101000167 catalytic site [active] 171101000168 VanZ like family; Region: VanZ; pfam04892 171101000169 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 171101000170 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 171101000171 purine monophosphate binding site [chemical binding]; other site 171101000172 dimer interface [polypeptide binding]; other site 171101000173 putative catalytic residues [active] 171101000174 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 171101000175 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 171101000176 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 171101000177 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 171101000178 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 171101000179 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 171101000180 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 171101000181 ATP-grasp domain; Region: ATP-grasp_4; cl17255 171101000182 adenylosuccinate lyase; Provisional; Region: PRK07492 171101000183 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 171101000184 tetramer interface [polypeptide binding]; other site 171101000185 active site 171101000186 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101000187 RCSD region; Region: RCSD; pfam05177 171101000188 Pfg27; Region: Pfg27; cl07736 171101000189 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 171101000190 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 171101000191 active site 171101000192 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 171101000193 active site 171101000194 G5 domain; Region: G5; pfam07501 171101000195 G5 domain; Region: G5; pfam07501 171101000196 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 171101000197 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 171101000198 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101000199 DNA-binding site [nucleotide binding]; DNA binding site 171101000200 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 171101000201 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 171101000202 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 171101000203 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 171101000204 active site 171101000205 phosphorylation site [posttranslational modification] 171101000206 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 171101000207 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 171101000208 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 171101000209 active pocket/dimerization site; other site 171101000210 active site 171101000211 phosphorylation site [posttranslational modification] 171101000212 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 171101000213 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 171101000214 dimer interface [polypeptide binding]; other site 171101000215 active site 171101000216 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 171101000217 putative active site [active] 171101000218 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 171101000219 active site 171101000220 catalytic residues [active] 171101000221 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 171101000222 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 171101000223 putative metal binding site [ion binding]; other site 171101000224 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 171101000225 active site 171101000226 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 171101000227 putative homodimer interface [polypeptide binding]; other site 171101000228 putative homotetramer interface [polypeptide binding]; other site 171101000229 putative metal binding site [ion binding]; other site 171101000230 putative homodimer-homodimer interface [polypeptide binding]; other site 171101000231 putative allosteric switch controlling residues; other site 171101000232 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 171101000233 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 171101000234 Cation transport protein; Region: TrkH; cl17365 171101000235 Cation transport protein; Region: TrkH; cl17365 171101000236 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 171101000237 TrkA-N domain; Region: TrkA_N; pfam02254 171101000238 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000239 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000240 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000241 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000242 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000243 Fibronectin-binding repeat; Region: SSURE; pfam11966 171101000244 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101000245 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 171101000246 active site 171101000247 phosphorylation site [posttranslational modification] 171101000248 intermolecular recognition site; other site 171101000249 dimerization interface [polypeptide binding]; other site 171101000250 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 171101000251 DNA binding site [nucleotide binding] 171101000252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101000253 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 171101000254 dimerization interface [polypeptide binding]; other site 171101000255 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 171101000256 dimer interface [polypeptide binding]; other site 171101000257 phosphorylation site [posttranslational modification] 171101000258 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 171101000259 ATP binding site [chemical binding]; other site 171101000260 Mg2+ binding site [ion binding]; other site 171101000261 G-X-G motif; other site 171101000262 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 171101000263 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 171101000264 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 171101000265 RNA binding surface [nucleotide binding]; other site 171101000266 Homeodomain-like domain; Region: HTH_23; cl17451 171101000267 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 171101000268 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 171101000269 dimer interface [polypeptide binding]; other site 171101000270 conserved gate region; other site 171101000271 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 171101000272 ABC-ATPase subunit interface; other site 171101000273 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101000274 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 171101000275 dimer interface [polypeptide binding]; other site 171101000276 conserved gate region; other site 171101000277 putative PBP binding loops; other site 171101000278 ABC-ATPase subunit interface; other site 171101000279 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101000280 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 171101000281 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 171101000282 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 171101000283 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 171101000284 active site residue [active] 171101000285 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 171101000286 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 171101000287 Merozoite surface protein (SPAM); Region: Merozoite_SPAM; pfam07133 171101000288 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 171101000289 Predicted membrane protein [Function unknown]; Region: COG4709 171101000290 Predicted transcriptional regulators [Transcription]; Region: COG1695 171101000291 putative DNA binding site [nucleotide binding]; other site 171101000292 putative Zn2+ binding site [ion binding]; other site 171101000293 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 171101000294 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 171101000295 putative substrate translocation pore; other site 171101000296 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 171101000297 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 171101000298 Ligand binding site; other site 171101000299 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 171101000300 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 171101000301 CoA binding domain; Region: CoA_binding; cl17356 171101000302 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 171101000303 NAD(P) binding site [chemical binding]; other site 171101000304 homodimer interface [polypeptide binding]; other site 171101000305 substrate binding site [chemical binding]; other site 171101000306 active site 171101000307 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 171101000308 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101000309 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 171101000310 active site 171101000311 motif I; other site 171101000312 motif II; other site 171101000313 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 171101000314 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 171101000315 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 171101000316 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 171101000317 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 171101000318 putative L-serine binding site [chemical binding]; other site 171101000319 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 171101000320 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 171101000321 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; pfam09683 171101000322 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 171101000323 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 171101000324 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101000325 Walker A/P-loop; other site 171101000326 ATP binding site [chemical binding]; other site 171101000327 Q-loop/lid; other site 171101000328 ABC transporter signature motif; other site 171101000329 Walker B; other site 171101000330 D-loop; other site 171101000331 H-loop/switch region; other site 171101000332 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 171101000333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101000334 substrate binding pocket [chemical binding]; other site 171101000335 membrane-bound complex binding site; other site 171101000336 hinge residues; other site 171101000337 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 171101000338 ANP binding site [chemical binding]; other site 171101000339 Substrate Binding Site II [chemical binding]; other site 171101000340 Substrate Binding Site I [chemical binding]; other site 171101000341 argininosuccinate lyase; Provisional; Region: PRK00855 171101000342 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 171101000343 active sites [active] 171101000344 tetramer interface [polypeptide binding]; other site 171101000345 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101000346 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 171101000347 non-specific DNA binding site [nucleotide binding]; other site 171101000348 salt bridge; other site 171101000349 sequence-specific DNA binding site [nucleotide binding]; other site 171101000350 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 171101000351 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101000352 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101000353 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101000354 Walker A/P-loop; other site 171101000355 ATP binding site [chemical binding]; other site 171101000356 Q-loop/lid; other site 171101000357 ABC transporter signature motif; other site 171101000358 Walker B; other site 171101000359 D-loop; other site 171101000360 H-loop/switch region; other site 171101000361 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 171101000362 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 171101000363 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 171101000364 HlyD family secretion protein; Region: HlyD_3; pfam13437 171101000365 2-isopropylmalate synthase/homocitrate synthase family protein; Region: LeuA_rel; TIGR00977 171101000366 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 171101000367 Protein of unknown function (DUF342); Region: DUF342; cl19219 171101000368 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101000369 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000370 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000371 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000372 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000373 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000374 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000375 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 171101000376 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000377 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101000378 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 171101000379 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 171101000380 Ligand Binding Site [chemical binding]; other site 171101000381 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 171101000382 nudix motif; other site 171101000383 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 171101000384 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 171101000385 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 171101000386 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 171101000387 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 171101000388 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 171101000389 hypothetical protein; Provisional; Region: PRK13667 171101000390 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 171101000391 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 171101000392 Glycoprotease family; Region: Peptidase_M22; pfam00814 171101000393 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 171101000394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101000395 Coenzyme A binding pocket [chemical binding]; other site 171101000396 UGMP family protein; Validated; Region: PRK09604 171101000397 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 171101000398 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 171101000399 Homeodomain-like domain; Region: HTH_23; cl17451 171101000400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 171101000401 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 171101000402 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 171101000403 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 171101000404 active site 171101000405 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101000406 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 171101000407 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101000408 Walker A/P-loop; other site 171101000409 ATP binding site [chemical binding]; other site 171101000410 Q-loop/lid; other site 171101000411 ABC transporter signature motif; other site 171101000412 Walker B; other site 171101000413 D-loop; other site 171101000414 H-loop/switch region; other site 171101000415 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 171101000416 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 171101000417 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 171101000418 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 171101000419 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 171101000420 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101000421 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 171101000422 non-specific DNA binding site [nucleotide binding]; other site 171101000423 salt bridge; other site 171101000424 sequence-specific DNA binding site [nucleotide binding]; other site 171101000425 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101000426 CAAX protease self-immunity; Region: Abi; pfam02517 171101000427 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 171101000428 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101000429 AzlC protein; Region: AzlC; cl00570 171101000430 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 171101000431 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 171101000432 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101000433 substrate binding pocket [chemical binding]; other site 171101000434 membrane-bound complex binding site; other site 171101000435 hinge residues; other site 171101000436 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 171101000437 hypothetical protein; Provisional; Region: PRK06446 171101000438 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 171101000439 metal binding site [ion binding]; metal-binding site 171101000440 dimer interface [polypeptide binding]; other site 171101000441 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 171101000442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101000443 Walker A/P-loop; other site 171101000444 ATP binding site [chemical binding]; other site 171101000445 Q-loop/lid; other site 171101000446 ABC transporter signature motif; other site 171101000447 Walker B; other site 171101000448 D-loop; other site 171101000449 H-loop/switch region; other site 171101000450 NIL domain; Region: NIL; pfam09383 171101000451 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 171101000452 dimer interface [polypeptide binding]; other site 171101000453 conserved gate region; other site 171101000454 ABC-ATPase subunit interface; other site 171101000455 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 171101000456 Predicted integral membrane protein [Function unknown]; Region: COG5578 171101000457 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 171101000458 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 171101000459 dimerization interface [polypeptide binding]; other site 171101000460 Histidine kinase; Region: His_kinase; pfam06580 171101000461 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 171101000462 ATP binding site [chemical binding]; other site 171101000463 Mg2+ binding site [ion binding]; other site 171101000464 G-X-G motif; other site 171101000465 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 171101000466 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 171101000467 active site 171101000468 phosphorylation site [posttranslational modification] 171101000469 intermolecular recognition site; other site 171101000470 dimerization interface [polypeptide binding]; other site 171101000471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101000472 flavoprotein NrdI; Provisional; Region: PRK02551 171101000473 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 171101000474 Amino acid permease; Region: AA_permease_2; pfam13520 171101000475 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 171101000476 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 171101000477 LytTr DNA-binding domain; Region: LytTR; smart00850 171101000478 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 171101000479 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 171101000480 ATP binding site [chemical binding]; other site 171101000481 Mg2+ binding site [ion binding]; other site 171101000482 G-X-G motif; other site 171101000483 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 171101000484 ATP binding site [chemical binding]; other site 171101000485 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 171101000486 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 171101000487 homopentamer interface [polypeptide binding]; other site 171101000488 active site 171101000489 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 171101000490 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 171101000491 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 171101000492 dimerization interface [polypeptide binding]; other site 171101000493 active site 171101000494 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 171101000495 Lumazine binding domain; Region: Lum_binding; pfam00677 171101000496 Lumazine binding domain; Region: Lum_binding; pfam00677 171101000497 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 171101000498 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 171101000499 catalytic motif [active] 171101000500 Zn binding site [ion binding]; other site 171101000501 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 171101000502 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 171101000503 RuvA N terminal domain; Region: RuvA_N; pfam01330 171101000504 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 171101000505 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 171101000506 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 171101000507 CAAX protease self-immunity; Region: Abi; pfam02517 171101000508 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 171101000509 putative dimer interface [polypeptide binding]; other site 171101000510 catalytic triad [active] 171101000511 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]; Region: COG4858 171101000512 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 171101000513 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 171101000514 Cl binding site [ion binding]; other site 171101000515 oligomer interface [polypeptide binding]; other site 171101000516 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 171101000517 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 171101000518 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 171101000519 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 171101000520 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 171101000521 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 171101000522 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 171101000523 active site 171101000524 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 171101000525 putative catalytic residues [active] 171101000526 thiol/disulfide switch; other site 171101000527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4472 171101000528 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 171101000529 hypothetical protein; Provisional; Region: PRK13678 171101000530 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 171101000531 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 171101000532 Bacterial lipoprotein; Region: DUF3642; pfam12182 171101000533 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 171101000534 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 171101000535 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 171101000536 putative active site [active] 171101000537 catalytic site [active] 171101000538 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 171101000539 putative active site [active] 171101000540 catalytic site [active] 171101000541 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 171101000542 ATP cone domain; Region: ATP-cone; pfam03477 171101000543 Class III ribonucleotide reductase; Region: RNR_III; cd01675 171101000544 effector binding site; other site 171101000545 active site 171101000546 Zn binding site [ion binding]; other site 171101000547 glycine loop; other site 171101000548 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 171101000549 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101000550 Coenzyme A binding pocket [chemical binding]; other site 171101000551 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 171101000552 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 171101000553 FeS/SAM binding site; other site 171101000554 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 171101000555 active site 171101000556 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 171101000557 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 171101000558 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 171101000559 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 171101000560 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 171101000561 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 171101000562 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 171101000563 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 171101000564 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 171101000565 putative translocon binding site; other site 171101000566 protein-rRNA interface [nucleotide binding]; other site 171101000567 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 171101000568 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 171101000569 G-X-X-G motif; other site 171101000570 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 171101000571 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 171101000572 23S rRNA interface [nucleotide binding]; other site 171101000573 5S rRNA interface [nucleotide binding]; other site 171101000574 putative antibiotic binding site [chemical binding]; other site 171101000575 L25 interface [polypeptide binding]; other site 171101000576 L27 interface [polypeptide binding]; other site 171101000577 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 171101000578 23S rRNA interface [nucleotide binding]; other site 171101000579 putative translocon interaction site; other site 171101000580 signal recognition particle (SRP54) interaction site; other site 171101000581 L23 interface [polypeptide binding]; other site 171101000582 trigger factor interaction site; other site 171101000583 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 171101000584 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 171101000585 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 171101000586 RNA binding site [nucleotide binding]; other site 171101000587 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 171101000588 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 171101000589 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 171101000590 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 171101000591 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 171101000592 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 171101000593 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 171101000594 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 171101000595 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 171101000596 5S rRNA interface [nucleotide binding]; other site 171101000597 L27 interface [polypeptide binding]; other site 171101000598 23S rRNA interface [nucleotide binding]; other site 171101000599 L5 interface [polypeptide binding]; other site 171101000600 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 171101000601 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 171101000602 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 171101000603 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 171101000604 23S rRNA binding site [nucleotide binding]; other site 171101000605 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 171101000606 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 171101000607 SecY translocase; Region: SecY; pfam00344 171101000608 adenylate kinase; Reviewed; Region: adk; PRK00279 171101000609 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 171101000610 AMP-binding site [chemical binding]; other site 171101000611 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 171101000612 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 171101000613 rRNA binding site [nucleotide binding]; other site 171101000614 predicted 30S ribosome binding site; other site 171101000615 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 171101000616 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 171101000617 30S ribosomal protein S11; Validated; Region: PRK05309 171101000618 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 171101000619 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 171101000620 alphaNTD homodimer interface [polypeptide binding]; other site 171101000621 alphaNTD - beta interaction site [polypeptide binding]; other site 171101000622 alphaNTD - beta' interaction site [polypeptide binding]; other site 171101000623 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 171101000624 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 171101000625 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 171101000626 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 171101000627 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 171101000628 catalytic core [active] 171101000629 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 171101000630 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 171101000631 dimer interface [polypeptide binding]; other site 171101000632 conserved gate region; other site 171101000633 putative PBP binding loops; other site 171101000634 ABC-ATPase subunit interface; other site 171101000635 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 171101000636 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 171101000637 dimer interface [polypeptide binding]; other site 171101000638 conserved gate region; other site 171101000639 ABC-ATPase subunit interface; other site 171101000640 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 171101000641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101000642 Walker A/P-loop; other site 171101000643 ATP binding site [chemical binding]; other site 171101000644 Q-loop/lid; other site 171101000645 ABC transporter signature motif; other site 171101000646 Walker B; other site 171101000647 D-loop; other site 171101000648 H-loop/switch region; other site 171101000649 TOBE domain; Region: TOBE_2; pfam08402 171101000650 Helix-turn-helix domain; Region: HTH_18; pfam12833 171101000651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101000652 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 171101000653 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 171101000654 FeS/SAM binding site; other site 171101000655 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 171101000656 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 171101000657 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 171101000658 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 171101000659 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 171101000660 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 171101000661 active site 171101000662 methionine cluster; other site 171101000663 phosphorylation site [posttranslational modification] 171101000664 metal binding site [ion binding]; metal-binding site 171101000665 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 171101000666 active site 171101000667 P-loop; other site 171101000668 phosphorylation site [posttranslational modification] 171101000669 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 171101000670 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 171101000671 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 171101000672 dimer interface [polypeptide binding]; other site 171101000673 active site 171101000674 glycine loop; other site 171101000675 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 171101000676 active site 171101000677 intersubunit interactions; other site 171101000678 catalytic residue [active] 171101000679 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 171101000680 dimer interface [polypeptide binding]; other site 171101000681 active site 171101000682 metal binding site [ion binding]; metal-binding site 171101000683 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 171101000684 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 171101000685 active site 171101000686 HIGH motif; other site 171101000687 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 171101000688 KMSKS motif; other site 171101000689 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 171101000690 tRNA binding surface [nucleotide binding]; other site 171101000691 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101000692 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 171101000693 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 171101000694 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101000695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 171101000696 Coenzyme A binding pocket [chemical binding]; other site 171101000697 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 171101000698 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 171101000699 Walker A motif; other site 171101000700 ATP binding site [chemical binding]; other site 171101000701 Walker B motif; other site 171101000702 arginine finger; other site 171101000703 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 171101000704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 171101000705 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 171101000706 active site 171101000707 dimer interface [polypeptide binding]; other site 171101000708 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 171101000709 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 171101000710 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 171101000711 active site 171101000712 putative substrate binding region [chemical binding]; other site 171101000713 prolyl-tRNA synthetase; Provisional; Region: PRK09194 171101000714 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 171101000715 dimer interface [polypeptide binding]; other site 171101000716 motif 1; other site 171101000717 active site 171101000718 motif 2; other site 171101000719 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 171101000720 putative deacylase active site [active] 171101000721 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 171101000722 anticodon binding site; other site 171101000723 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 171101000724 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 171101000725 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 171101000726 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 171101000727 glutaminase active site [active] 171101000728 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 171101000729 dimer interface [polypeptide binding]; other site 171101000730 active site 171101000731 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 171101000732 dimer interface [polypeptide binding]; other site 171101000733 active site 171101000734 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 171101000735 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 171101000736 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 171101000737 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 171101000738 carbohydrate binding site [chemical binding]; other site 171101000739 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 171101000740 carbohydrate binding site [chemical binding]; other site 171101000741 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 171101000742 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 171101000743 Ca binding site [ion binding]; other site 171101000744 active site 171101000745 catalytic site [active] 171101000746 Domain of unknown function (DUF4628); Region: DUF4628; pfam15429 171101000747 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 171101000748 S17 interaction site [polypeptide binding]; other site 171101000749 S8 interaction site; other site 171101000750 16S rRNA interaction site [nucleotide binding]; other site 171101000751 streptomycin interaction site [chemical binding]; other site 171101000752 23S rRNA interaction site [nucleotide binding]; other site 171101000753 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 171101000754 30S ribosomal protein S7; Validated; Region: PRK05302 171101000755 elongation factor G; Reviewed; Region: PRK00007 171101000756 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 171101000757 G1 box; other site 171101000758 putative GEF interaction site [polypeptide binding]; other site 171101000759 GTP/Mg2+ binding site [chemical binding]; other site 171101000760 Switch I region; other site 171101000761 G2 box; other site 171101000762 G3 box; other site 171101000763 Switch II region; other site 171101000764 G4 box; other site 171101000765 G5 box; other site 171101000766 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 171101000767 Elongation Factor G, domain II; Region: EFG_II; pfam14492 171101000768 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 171101000769 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 171101000770 DNA polymerase III PolC; Validated; Region: polC; PRK00448 171101000771 DNA polymerase III polC-type N-terminus I; Region: DNA_pol3_a_NI; pfam14480 171101000772 DNA polymerase III polC-type N-terminus II; Region: DNA_pol3_a_NII; pfam11490 171101000773 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 171101000774 generic binding surface II; other site 171101000775 generic binding surface I; other site 171101000776 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 171101000777 active site 171101000778 putative PHP Thumb interface [polypeptide binding]; other site 171101000779 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 171101000780 active site 171101000781 catalytic site [active] 171101000782 substrate binding site [chemical binding]; other site 171101000783 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 171101000784 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 171101000785 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 171101000786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 171101000787 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 171101000788 Predicted membrane protein [Function unknown]; Region: COG2261 171101000789 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 171101000790 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 171101000791 RNA binding surface [nucleotide binding]; other site 171101000792 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 171101000793 active site 171101000794 uracil binding [chemical binding]; other site 171101000795 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 171101000796 trimer interface [polypeptide binding]; other site 171101000797 active site 171101000798 G bulge; other site 171101000799 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 171101000800 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 171101000801 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 171101000802 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 171101000803 active pocket/dimerization site; other site 171101000804 active site 171101000805 phosphorylation site [posttranslational modification] 171101000806 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 171101000807 active site 171101000808 phosphorylation site [posttranslational modification] 171101000809 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 171101000810 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 171101000811 NAD binding site [chemical binding]; other site 171101000812 substrate binding site [chemical binding]; other site 171101000813 catalytic Zn binding site [ion binding]; other site 171101000814 tetramer interface [polypeptide binding]; other site 171101000815 structural Zn binding site [ion binding]; other site 171101000816 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 171101000817 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 171101000818 active site 171101000819 motif I; other site 171101000820 motif II; other site 171101000821 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101000822 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 171101000823 Sulfate transporter family; Region: Sulfate_transp; cl19250 171101000824 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 171101000825 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 171101000826 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 171101000827 substrate binding pocket [chemical binding]; other site 171101000828 dimer interface [polypeptide binding]; other site 171101000829 inhibitor binding site; inhibition site 171101000830 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 171101000831 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 171101000832 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101000833 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 171101000834 homodecamer interface [polypeptide binding]; other site 171101000835 active site 171101000836 putative catalytic site residues [active] 171101000837 zinc binding site [ion binding]; other site 171101000838 GTP-CH-I/GFRP interaction surface; other site 171101000839 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 171101000840 homooctamer interface [polypeptide binding]; other site 171101000841 active site 171101000842 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 171101000843 catalytic center binding site [active] 171101000844 ATP binding site [chemical binding]; other site 171101000845 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 171101000846 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 171101000847 23S rRNA interface [nucleotide binding]; other site 171101000848 L3 interface [polypeptide binding]; other site 171101000849 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 171101000850 Uncharacterized conserved protein [Function unknown]; Region: COG1359 171101000851 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 171101000852 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 171101000853 Uncharacterized conserved protein [Function unknown]; Region: COG4095 171101000854 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 171101000855 active site 171101000856 P-loop; other site 171101000857 phosphorylation site [posttranslational modification] 171101000858 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101000859 HTH domain; Region: HTH_11; pfam08279 171101000860 Mga helix-turn-helix domain; Region: Mga; pfam05043 171101000861 PRD domain; Region: PRD; pfam00874 171101000862 PRD domain; Region: PRD; pfam00874 171101000863 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 171101000864 active site 171101000865 P-loop; other site 171101000866 phosphorylation site [posttranslational modification] 171101000867 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 171101000868 active site 171101000869 phosphorylation site [posttranslational modification] 171101000870 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 171101000871 methionine cluster; other site 171101000872 active site 171101000873 phosphorylation site [posttranslational modification] 171101000874 metal binding site [ion binding]; metal-binding site 171101000875 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 171101000876 Glycosyl hydrolases family 31; Region: Glyco_hydro_31; pfam01055 171101000877 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 171101000878 putative active site [active] 171101000879 putative catalytic site [active] 171101000880 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 171101000881 catalytic residues [active] 171101000882 dimer interface [polypeptide binding]; other site 171101000883 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 171101000884 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 171101000885 substrate binding site [chemical binding]; other site 171101000886 catalytic residues [active] 171101000887 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 171101000888 Entner-Doudoroff aldolase; Region: eda; TIGR01182 171101000889 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 171101000890 active site 171101000891 intersubunit interface [polypeptide binding]; other site 171101000892 catalytic residue [active] 171101000893 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 171101000894 substrate binding site [chemical binding]; other site 171101000895 ATP binding site [chemical binding]; other site 171101000896 hypothetical protein; Provisional; Region: PRK09273 171101000897 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 171101000898 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 171101000899 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 171101000900 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 171101000901 NADP binding site [chemical binding]; other site 171101000902 homodimer interface [polypeptide binding]; other site 171101000903 active site 171101000904 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 171101000905 active pocket/dimerization site; other site 171101000906 active site 171101000907 phosphorylation site [posttranslational modification] 171101000908 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 171101000909 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 171101000910 active site 171101000911 phosphorylation site [posttranslational modification] 171101000912 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 171101000913 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 171101000914 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 171101000915 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 171101000916 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101000917 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101000918 DNA binding site [nucleotide binding] 171101000919 domain linker motif; other site 171101000920 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 171101000921 putative dimerization interface [polypeptide binding]; other site 171101000922 putative ligand binding site [chemical binding]; other site 171101000923 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101000924 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 171101000925 non-specific DNA binding site [nucleotide binding]; other site 171101000926 salt bridge; other site 171101000927 sequence-specific DNA binding site [nucleotide binding]; other site 171101000928 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 171101000929 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 171101000930 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 171101000931 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 171101000932 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 171101000933 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 171101000934 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 171101000935 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 171101000936 Mg++ binding site [ion binding]; other site 171101000937 putative catalytic motif [active] 171101000938 putative substrate binding site [chemical binding]; other site 171101000939 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 171101000940 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 171101000941 Walker A motif; other site 171101000942 ATP binding site [chemical binding]; other site 171101000943 Walker B motif; other site 171101000944 arginine finger; other site 171101000945 UvrB/uvrC motif; Region: UVR; pfam02151 171101000946 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 171101000947 Walker A motif; other site 171101000948 ATP binding site [chemical binding]; other site 171101000949 Walker B motif; other site 171101000950 arginine finger; other site 171101000951 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 171101000952 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 171101000953 hypothetical protein; Provisional; Region: PRK13663 171101000954 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 171101000955 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 171101000956 Ca binding site [ion binding]; other site 171101000957 active site 171101000958 catalytic site [active] 171101000959 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 171101000960 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 171101000961 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 171101000962 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 171101000963 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 171101000964 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 171101000965 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 171101000966 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 171101000967 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 171101000968 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 171101000969 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 171101000970 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 171101000971 UDP-galactopyranose mutase; Region: GLF; pfam03275 171101000972 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 171101000973 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 171101000974 substrate binding site; other site 171101000975 tetramer interface; other site 171101000976 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 171101000977 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 171101000978 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 171101000979 NAD binding site [chemical binding]; other site 171101000980 substrate binding site [chemical binding]; other site 171101000981 homodimer interface [polypeptide binding]; other site 171101000982 active site 171101000983 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 171101000984 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 171101000985 NADP binding site [chemical binding]; other site 171101000986 active site 171101000987 putative substrate binding site [chemical binding]; other site 171101000988 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 171101000989 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 171101000990 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 171101000991 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 171101000992 peptide binding site [polypeptide binding]; other site 171101000993 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101000994 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 171101000995 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 171101000996 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 171101000997 active site 171101000998 catalytic site [active] 171101000999 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 171101001000 Transglycosylase; Region: Transgly; pfam00912 171101001001 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 171101001002 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 171101001003 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 171101001004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4474 171101001005 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 171101001006 cell division protein GpsB; Provisional; Region: PRK14127; cl19517 171101001007 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 171101001008 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 171101001009 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 171101001010 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 171101001011 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 171101001012 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 171101001013 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101001014 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 171101001015 active site 171101001016 phosphorylation site [posttranslational modification] 171101001017 intermolecular recognition site; other site 171101001018 dimerization interface [polypeptide binding]; other site 171101001019 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 171101001020 DNA binding site [nucleotide binding] 171101001021 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101001022 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 171101001023 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 171101001024 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 171101001025 diphosphomevalonate decarboxylase; Region: PLN02407 171101001026 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 171101001027 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 171101001028 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 171101001029 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 171101001030 homotetramer interface [polypeptide binding]; other site 171101001031 FMN binding site [chemical binding]; other site 171101001032 homodimer contacts [polypeptide binding]; other site 171101001033 putative active site [active] 171101001034 putative substrate binding site [chemical binding]; other site 171101001035 Predicted membrane protein [Function unknown]; Region: COG4758 171101001036 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 171101001037 Histidine kinase; Region: HisKA_3; pfam07730 171101001038 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 171101001039 ATP binding site [chemical binding]; other site 171101001040 Mg2+ binding site [ion binding]; other site 171101001041 G-X-G motif; other site 171101001042 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 171101001043 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 171101001044 active site 171101001045 phosphorylation site [posttranslational modification] 171101001046 intermolecular recognition site; other site 171101001047 dimerization interface [polypeptide binding]; other site 171101001048 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 171101001049 DNA binding residues [nucleotide binding] 171101001050 dimerization interface [polypeptide binding]; other site 171101001051 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101001052 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101001053 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 171101001054 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 171101001055 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 171101001056 active site 171101001057 P-loop; other site 171101001058 phosphorylation site [posttranslational modification] 171101001059 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 171101001060 active site 171101001061 P-loop; other site 171101001062 phosphorylation site [posttranslational modification] 171101001063 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101001064 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 171101001065 active site 171101001066 P-loop; other site 171101001067 phosphorylation site [posttranslational modification] 171101001068 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 171101001069 active site 171101001070 phosphorylation site [posttranslational modification] 171101001071 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 171101001072 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 171101001073 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 171101001074 trigger factor; Provisional; Region: tig; PRK01490 171101001075 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 171101001076 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 171101001077 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 171101001078 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 171101001079 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 171101001080 DNA binding site [nucleotide binding] 171101001081 Helix-hairpin-helix containing domain; Region: HHH_4; pfam14490 171101001082 AAA domain; Region: AAA_30; pfam13604 171101001083 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 171101001084 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 171101001085 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 171101001086 Catalytic site [active] 171101001087 ribonuclease HIII; Provisional; Region: PRK00996 171101001088 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 171101001089 Bacterial type 2 ribonuclease, HII and HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 171101001090 RNA/DNA hybrid binding site [nucleotide binding]; other site 171101001091 active site 171101001092 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 171101001093 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 171101001094 MutS domain III; Region: MutS_III; pfam05192 171101001095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101001096 Walker A/P-loop; other site 171101001097 ATP binding site [chemical binding]; other site 171101001098 Q-loop/lid; other site 171101001099 ABC transporter signature motif; other site 171101001100 Walker B; other site 171101001101 D-loop; other site 171101001102 H-loop/switch region; other site 171101001103 Smr domain; Region: Smr; pfam01713 171101001104 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 171101001105 Uncharacterized conserved protein [Function unknown]; Region: COG2128 171101001106 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 171101001107 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 171101001108 gating phenylalanine in ion channel; other site 171101001109 seryl-tRNA synthetase; Provisional; Region: PRK05431 171101001110 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 171101001111 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 171101001112 dimer interface [polypeptide binding]; other site 171101001113 active site 171101001114 motif 1; other site 171101001115 motif 2; other site 171101001116 motif 3; other site 171101001117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 171101001118 aspartate kinase; Reviewed; Region: PRK09034 171101001119 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 171101001120 putative catalytic residues [active] 171101001121 putative nucleotide binding site [chemical binding]; other site 171101001122 putative aspartate binding site [chemical binding]; other site 171101001123 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 171101001124 allosteric regulatory residue; other site 171101001125 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 171101001126 enoyl-CoA hydratase; Provisional; Region: PRK07260 171101001127 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 171101001128 substrate binding site [chemical binding]; other site 171101001129 oxyanion hole (OAH) forming residues; other site 171101001130 trimer interface [polypeptide binding]; other site 171101001131 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 171101001132 Transcriptional regulators [Transcription]; Region: MarR; COG1846 171101001133 putative Zn2+ binding site [ion binding]; other site 171101001134 putative DNA binding site [nucleotide binding]; other site 171101001135 dimerization interface [polypeptide binding]; other site 171101001136 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 171101001137 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 171101001138 dimer interface [polypeptide binding]; other site 171101001139 active site 171101001140 CoA binding pocket [chemical binding]; other site 171101001141 acyl carrier protein; Provisional; Region: acpP; PRK00982 171101001142 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 171101001143 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 171101001144 FMN binding site [chemical binding]; other site 171101001145 substrate binding site [chemical binding]; other site 171101001146 putative catalytic residue [active] 171101001147 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 171101001148 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 171101001149 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 171101001150 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 171101001151 NAD(P) binding site [chemical binding]; other site 171101001152 homotetramer interface [polypeptide binding]; other site 171101001153 homodimer interface [polypeptide binding]; other site 171101001154 active site 171101001155 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 171101001156 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 171101001157 dimer interface [polypeptide binding]; other site 171101001158 active site 171101001159 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 171101001160 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 171101001161 carboxyltransferase (CT) interaction site; other site 171101001162 biotinylation site [posttranslational modification]; other site 171101001163 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 171101001164 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 171101001165 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 171101001166 ATP-grasp domain; Region: ATP-grasp_4; cl17255 171101001167 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 171101001168 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 171101001169 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 171101001170 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 171101001171 putative RNA binding site [nucleotide binding]; other site 171101001172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 171101001173 elongation factor P; Validated; Region: PRK00529 171101001174 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 171101001175 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 171101001176 RNA binding site [nucleotide binding]; other site 171101001177 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 171101001178 RNA binding site [nucleotide binding]; other site 171101001179 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 171101001180 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 171101001181 GatB domain; Region: GatB_Yqey; pfam02637 171101001182 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 171101001183 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 171101001184 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 171101001185 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 171101001186 G1 box; other site 171101001187 putative GEF interaction site [polypeptide binding]; other site 171101001188 GTP/Mg2+ binding site [chemical binding]; other site 171101001189 Switch I region; other site 171101001190 G2 box; other site 171101001191 G3 box; other site 171101001192 Switch II region; other site 171101001193 G4 box; other site 171101001194 G5 box; other site 171101001195 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 171101001196 Elongation Factor G, domain II; Region: EFG_II; pfam14492 171101001197 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 171101001198 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 171101001199 Ligand binding site; other site 171101001200 metal-binding site 171101001201 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 171101001202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 171101001203 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 171101001204 DAK2 domain; Region: Dak2; pfam02734 171101001205 Dihydroxyacetone kinase family; Region: Dak1_2; pfam13684 171101001206 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 171101001207 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 171101001208 PYR/PP interface [polypeptide binding]; other site 171101001209 dimer interface [polypeptide binding]; other site 171101001210 TPP binding site [chemical binding]; other site 171101001211 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 171101001212 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 171101001213 TPP-binding site [chemical binding]; other site 171101001214 dimer interface [polypeptide binding]; other site 171101001215 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 171101001216 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 171101001217 putative valine binding site [chemical binding]; other site 171101001218 dimer interface [polypeptide binding]; other site 171101001219 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 171101001220 ketol-acid reductoisomerase; Provisional; Region: PRK05479 171101001221 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 171101001222 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 171101001223 threonine dehydratase; Validated; Region: PRK08639 171101001224 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 171101001225 tetramer interface [polypeptide binding]; other site 171101001226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101001227 catalytic residue [active] 171101001228 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 171101001229 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101001230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101001231 Walker A/P-loop; other site 171101001232 ATP binding site [chemical binding]; other site 171101001233 Q-loop/lid; other site 171101001234 ABC transporter signature motif; other site 171101001235 Walker B; other site 171101001236 D-loop; other site 171101001237 H-loop/switch region; other site 171101001238 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 171101001239 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101001240 substrate binding pocket [chemical binding]; other site 171101001241 membrane-bound complex binding site; other site 171101001242 hinge residues; other site 171101001243 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101001244 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 171101001245 dimer interface [polypeptide binding]; other site 171101001246 conserved gate region; other site 171101001247 putative PBP binding loops; other site 171101001248 ABC-ATPase subunit interface; other site 171101001249 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 171101001250 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 171101001251 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 171101001252 active site 171101001253 DNA polymerase IV; Validated; Region: PRK02406 171101001254 DNA binding site [nucleotide binding] 171101001255 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 171101001256 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 171101001257 Transcriptional regulators [Transcription]; Region: MarR; COG1846 171101001258 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 171101001259 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101001260 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 171101001261 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 171101001262 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 171101001263 methionine cluster; other site 171101001264 active site 171101001265 phosphorylation site [posttranslational modification] 171101001266 metal binding site [ion binding]; metal-binding site 171101001267 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 171101001268 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 171101001269 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 171101001270 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 171101001271 active site 171101001272 P-loop; other site 171101001273 phosphorylation site [posttranslational modification] 171101001274 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 171101001275 Cation transport protein; Region: TrkH; cl17365 171101001276 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 171101001277 TrkA-N domain; Region: TrkA_N; pfam02254 171101001278 TrkA-C domain; Region: TrkA_C; pfam02080 171101001279 TrkA-N domain; Region: TrkA_N; pfam02254 171101001280 TrkA-C domain; Region: TrkA_C; pfam02080 171101001281 Uncharacterized conserved protein [Function unknown]; Region: COG1912 171101001282 hypothetical protein; Provisional; Region: PRK13661 171101001283 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 171101001284 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 171101001285 Walker A/P-loop; other site 171101001286 ATP binding site [chemical binding]; other site 171101001287 Q-loop/lid; other site 171101001288 ABC transporter signature motif; other site 171101001289 Walker B; other site 171101001290 D-loop; other site 171101001291 H-loop/switch region; other site 171101001292 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 171101001293 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 171101001294 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 171101001295 Walker A/P-loop; other site 171101001296 ATP binding site [chemical binding]; other site 171101001297 Q-loop/lid; other site 171101001298 ABC transporter signature motif; other site 171101001299 Walker B; other site 171101001300 D-loop; other site 171101001301 H-loop/switch region; other site 171101001302 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 171101001303 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 171101001304 Predicted membrane protein [Function unknown]; Region: COG3601 171101001305 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 171101001306 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 171101001307 active site 171101001308 ParB-like nuclease domain; Region: ParBc; cl02129 171101001309 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 171101001310 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 171101001311 DNA-directed RNA polymerase, delta subunit [Transcription]; Region: RpoE; COG3343 171101001312 CTP synthetase; Validated; Region: pyrG; PRK05380 171101001313 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 171101001314 Catalytic site [active] 171101001315 active site 171101001316 UTP binding site [chemical binding]; other site 171101001317 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 171101001318 active site 171101001319 putative oxyanion hole; other site 171101001320 catalytic triad [active] 171101001321 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 171101001322 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 171101001323 PhoU domain; Region: PhoU; pfam01895 171101001324 PhoU domain; Region: PhoU; pfam01895 171101001325 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101001326 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 171101001327 active site 171101001328 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 171101001329 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 171101001330 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 171101001331 G5 domain; Region: G5; pfam07501 171101001332 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 171101001333 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 171101001334 substrate binding site [chemical binding]; other site 171101001335 hinge regions; other site 171101001336 ADP binding site [chemical binding]; other site 171101001337 catalytic site [active] 171101001338 Predicted membrane protein [Function unknown]; Region: COG4129 171101001339 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 171101001340 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 171101001341 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 171101001342 DNA binding residues [nucleotide binding] 171101001343 putative dimer interface [polypeptide binding]; other site 171101001344 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 171101001345 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 171101001346 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 171101001347 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001348 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 171101001349 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001350 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 171101001351 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001352 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 171101001353 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 171101001354 Int/Topo IB signature motif; other site 171101001355 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001356 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 171101001357 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101001358 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 171101001359 HsdM N-terminal domain; Region: HsdM_N; pfam12161 171101001360 Methyltransferase domain; Region: Methyltransf_26; pfam13659 171101001361 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 171101001362 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 171101001363 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 171101001364 ATP binding site [chemical binding]; other site 171101001365 putative Mg++ binding site [ion binding]; other site 171101001366 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 171101001367 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 171101001368 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 171101001369 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 171101001370 HrcA protein C terminal domain; Region: HrcA; pfam01628 171101001371 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 171101001372 dimer interface [polypeptide binding]; other site 171101001373 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 171101001374 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 171101001375 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 171101001376 nucleotide binding site [chemical binding]; other site 171101001377 NEF interaction site [polypeptide binding]; other site 171101001378 SBD interface [polypeptide binding]; other site 171101001379 chaperone protein DnaJ; Provisional; Region: PRK14276 171101001380 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 171101001381 HSP70 interaction site [polypeptide binding]; other site 171101001382 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 171101001383 substrate binding site [polypeptide binding]; other site 171101001384 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 171101001385 Zn binding sites [ion binding]; other site 171101001386 dimer interface [polypeptide binding]; other site 171101001387 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 171101001388 HIT family signature motif; other site 171101001389 catalytic residue [active] 171101001390 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 171101001391 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 171101001392 Walker A/P-loop; other site 171101001393 ATP binding site [chemical binding]; other site 171101001394 Q-loop/lid; other site 171101001395 ABC transporter signature motif; other site 171101001396 Walker B; other site 171101001397 D-loop; other site 171101001398 H-loop/switch region; other site 171101001399 Predicted ABC-type exoprotein transport system, permease component [Intracellular trafficking and secretion]; Region: EcsB; COG4473 171101001400 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 171101001401 LytTr DNA-binding domain; Region: LytTR; pfam04397 171101001402 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 171101001403 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 171101001404 active site 171101001405 phosphorylation site [posttranslational modification] 171101001406 intermolecular recognition site; other site 171101001407 dimerization interface [polypeptide binding]; other site 171101001408 LytTr DNA-binding domain; Region: LytTR; pfam04397 171101001409 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 171101001410 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 171101001411 ATP binding site [chemical binding]; other site 171101001412 Mg2+ binding site [ion binding]; other site 171101001413 G-X-G motif; other site 171101001414 COMC family; Region: ComC; pfam03047 171101001415 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 171101001416 CAAX protease self-immunity; Region: Abi; pfam02517 171101001417 Thiamine kinase and related kinases [Coenzyme transport and metabolism]; Region: ycfN; COG0510 171101001418 Phosphotransferase enzyme family; Region: APH; pfam01636 171101001419 substrate binding site [chemical binding]; other site 171101001420 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 171101001421 S-adenosylmethionine binding site [chemical binding]; other site 171101001422 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 171101001423 putative oligomer interface [polypeptide binding]; other site 171101001424 putative RNA binding site [nucleotide binding]; other site 171101001425 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 171101001426 NusA N-terminal domain; Region: NusA_N; pfam08529 171101001427 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 171101001428 RNA binding site [nucleotide binding]; other site 171101001429 homodimer interface [polypeptide binding]; other site 171101001430 NusA-like KH domain; Region: KH_5; pfam13184 171101001431 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 171101001432 G-X-X-G motif; other site 171101001433 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 171101001434 putative RNA binding cleft [nucleotide binding]; other site 171101001435 hypothetical protein; Provisional; Region: PRK07283 171101001436 translation initiation factor IF-2; Validated; Region: infB; PRK05306 171101001437 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 171101001438 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 171101001439 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 171101001440 G1 box; other site 171101001441 putative GEF interaction site [polypeptide binding]; other site 171101001442 GTP/Mg2+ binding site [chemical binding]; other site 171101001443 Switch I region; other site 171101001444 G2 box; other site 171101001445 G3 box; other site 171101001446 Switch II region; other site 171101001447 G4 box; other site 171101001448 G5 box; other site 171101001449 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 171101001450 Translation-initiation factor 2; Region: IF-2; pfam11987 171101001451 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 171101001452 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 171101001453 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 171101001454 Uncharacterized conserved protein [Function unknown]; Region: COG2461 171101001455 Family of unknown function (DUF438); Region: DUF438; pfam04282 171101001456 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 171101001457 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 171101001458 putative active site [active] 171101001459 heme pocket [chemical binding]; other site 171101001460 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 171101001461 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 171101001462 hypothetical protein; Provisional; Region: PRK07758 171101001463 Flavin Reductases; Region: FlaRed; cl00801 171101001464 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101001465 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101001466 Coenzyme A binding pocket [chemical binding]; other site 171101001467 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 171101001468 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 171101001469 active site 171101001470 HIGH motif; other site 171101001471 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 171101001472 KMSKS motif; other site 171101001473 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 171101001474 tRNA binding surface [nucleotide binding]; other site 171101001475 anticodon binding site; other site 171101001476 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 171101001477 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 171101001478 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 171101001479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 171101001480 transcriptional antiterminator BglG; Provisional; Region: PRK09772 171101001481 CAT RNA binding domain; Region: CAT_RBD; smart01061 171101001482 PRD domain; Region: PRD; pfam00874 171101001483 PRD domain; Region: PRD; pfam00874 171101001484 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 171101001485 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 171101001486 active site turn [active] 171101001487 phosphorylation site [posttranslational modification] 171101001488 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 171101001489 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 171101001490 HPr interaction site; other site 171101001491 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101001492 active site 171101001493 phosphorylation site [posttranslational modification] 171101001494 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 171101001495 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 171101001496 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 171101001497 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 171101001498 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 171101001499 dimer interface [polypeptide binding]; other site 171101001500 motif 1; other site 171101001501 active site 171101001502 motif 2; other site 171101001503 motif 3; other site 171101001504 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 171101001505 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101001506 Coenzyme A binding pocket [chemical binding]; other site 171101001507 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 171101001508 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 171101001509 putative tRNA-binding site [nucleotide binding]; other site 171101001510 B3/4 domain; Region: B3_4; pfam03483 171101001511 tRNA synthetase B5 domain; Region: B5; smart00874 171101001512 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 171101001513 dimer interface [polypeptide binding]; other site 171101001514 motif 1; other site 171101001515 motif 3; other site 171101001516 motif 2; other site 171101001517 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 171101001518 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 171101001519 putative catalytic site [active] 171101001520 putative metal binding site [ion binding]; other site 171101001521 putative phosphate binding site [ion binding]; other site 171101001522 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 171101001523 non-specific DNA binding site [nucleotide binding]; other site 171101001524 salt bridge; other site 171101001525 sequence-specific DNA binding site [nucleotide binding]; other site 171101001526 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 171101001527 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 171101001528 THF binding site; other site 171101001529 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 171101001530 substrate binding site [chemical binding]; other site 171101001531 THF binding site; other site 171101001532 zinc-binding site [ion binding]; other site 171101001533 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 171101001534 FAD binding site [chemical binding]; other site 171101001535 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 171101001536 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 171101001537 RNase E interface [polypeptide binding]; other site 171101001538 trimer interface [polypeptide binding]; other site 171101001539 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 171101001540 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 171101001541 RNase E interface [polypeptide binding]; other site 171101001542 trimer interface [polypeptide binding]; other site 171101001543 active site 171101001544 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 171101001545 putative nucleic acid binding region [nucleotide binding]; other site 171101001546 G-X-X-G motif; other site 171101001547 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 171101001548 RNA binding site [nucleotide binding]; other site 171101001549 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 171101001550 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 171101001551 trimer interface [polypeptide binding]; other site 171101001552 active site 171101001553 substrate binding site [chemical binding]; other site 171101001554 CoA binding site [chemical binding]; other site 171101001555 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101001556 Coenzyme A binding pocket [chemical binding]; other site 171101001557 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 171101001558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101001559 Coenzyme A binding pocket [chemical binding]; other site 171101001560 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 171101001561 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 171101001562 active site 171101001563 HIGH motif; other site 171101001564 KMSKS motif; other site 171101001565 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 171101001566 tRNA binding surface [nucleotide binding]; other site 171101001567 anticodon binding site; other site 171101001568 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 171101001569 active site 171101001570 metal binding site [ion binding]; metal-binding site 171101001571 dimerization interface [polypeptide binding]; other site 171101001572 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 171101001573 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 171101001574 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 171101001575 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 171101001576 FtsX-like permease family; Region: FtsX; pfam02687 171101001577 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101001578 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 171101001579 Walker A/P-loop; other site 171101001580 ATP binding site [chemical binding]; other site 171101001581 Q-loop/lid; other site 171101001582 ABC transporter signature motif; other site 171101001583 Walker B; other site 171101001584 D-loop; other site 171101001585 H-loop/switch region; other site 171101001586 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 171101001587 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 171101001588 FtsX-like permease family; Region: FtsX; pfam02687 171101001589 similar to signal peptide 171101001590 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101001591 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 171101001592 active site 171101001593 phosphorylation site [posttranslational modification] 171101001594 intermolecular recognition site; other site 171101001595 dimerization interface [polypeptide binding]; other site 171101001596 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 171101001597 DNA binding site [nucleotide binding] 171101001598 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101001599 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 171101001600 dimerization interface [polypeptide binding]; other site 171101001601 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 171101001602 dimer interface [polypeptide binding]; other site 171101001603 phosphorylation site [posttranslational modification] 171101001604 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 171101001605 ATP binding site [chemical binding]; other site 171101001606 Mg2+ binding site [ion binding]; other site 171101001607 G-X-G motif; other site 171101001608 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 171101001609 intersubunit interface [polypeptide binding]; other site 171101001610 active site 171101001611 zinc binding site [ion binding]; other site 171101001612 Na+ binding site [ion binding]; other site 171101001613 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 171101001614 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 171101001615 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 171101001616 FAD binding pocket [chemical binding]; other site 171101001617 FAD binding motif [chemical binding]; other site 171101001618 phosphate binding motif [ion binding]; other site 171101001619 beta-alpha-beta structure motif; other site 171101001620 NAD binding pocket [chemical binding]; other site 171101001621 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101001622 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 171101001623 dimer interface [polypeptide binding]; other site 171101001624 conserved gate region; other site 171101001625 putative PBP binding loops; other site 171101001626 ABC-ATPase subunit interface; other site 171101001627 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101001628 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 171101001629 dimer interface [polypeptide binding]; other site 171101001630 conserved gate region; other site 171101001631 putative PBP binding loops; other site 171101001632 ABC-ATPase subunit interface; other site 171101001633 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 171101001634 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 171101001635 substrate binding pocket [chemical binding]; other site 171101001636 membrane-bound complex binding site; other site 171101001637 hinge residues; other site 171101001638 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 171101001639 DHH family; Region: DHH; pfam01368 171101001640 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 171101001641 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 171101001642 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 171101001643 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 171101001644 Predicted esterase [General function prediction only]; Region: COG0627 171101001645 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 171101001646 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 171101001647 FemAB family; Region: FemAB; pfam02388 171101001648 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 171101001649 active site 171101001650 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 171101001651 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 171101001652 GIY-YIG motif/motif A; other site 171101001653 active site 171101001654 catalytic site [active] 171101001655 putative DNA binding site [nucleotide binding]; other site 171101001656 metal binding site [ion binding]; metal-binding site 171101001657 UvrB/uvrC motif; Region: UVR; pfam02151 171101001658 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 171101001659 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 171101001660 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 171101001661 active site 171101001662 metal binding site [ion binding]; metal-binding site 171101001663 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 171101001664 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101001665 substrate binding pocket [chemical binding]; other site 171101001666 membrane-bound complex binding site; other site 171101001667 hinge residues; other site 171101001668 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 171101001669 dimer interface [polypeptide binding]; other site 171101001670 FMN binding site [chemical binding]; other site 171101001671 dipeptidase PepV; Reviewed; Region: PRK07318 171101001672 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 171101001673 active site 171101001674 metal binding site [ion binding]; metal-binding site 171101001675 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 171101001676 putative uracil binding site [chemical binding]; other site 171101001677 putative active site [active] 171101001678 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 171101001679 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 171101001680 putative oligomer interface [polypeptide binding]; other site 171101001681 putative active site [active] 171101001682 metal binding site [ion binding]; metal-binding site 171101001683 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 171101001684 nucleotide binding site/active site [active] 171101001685 HIT family signature motif; other site 171101001686 catalytic residue [active] 171101001687 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 171101001688 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 171101001689 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 171101001690 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 171101001691 23S rRNA interface [nucleotide binding]; other site 171101001692 L7/L12 interface [polypeptide binding]; other site 171101001693 putative thiostrepton binding site; other site 171101001694 L25 interface [polypeptide binding]; other site 171101001695 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 171101001696 mRNA/rRNA interface [nucleotide binding]; other site 171101001697 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 171101001698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101001699 Walker A/P-loop; other site 171101001700 ATP binding site [chemical binding]; other site 171101001701 Q-loop/lid; other site 171101001702 ABC transporter signature motif; other site 171101001703 Walker B; other site 171101001704 D-loop; other site 171101001705 H-loop/switch region; other site 171101001706 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 171101001707 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 171101001708 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 171101001709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101001710 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 171101001711 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 171101001712 catalytic triad [active] 171101001713 putative active site [active] 171101001714 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 171101001715 PA/protease or protease-like domain interface [polypeptide binding]; other site 171101001716 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 171101001717 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 171101001718 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 171101001719 active site 171101001720 phosphorylation site [posttranslational modification] 171101001721 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 171101001722 active site 171101001723 P-loop; other site 171101001724 phosphorylation site [posttranslational modification] 171101001725 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 171101001726 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 171101001727 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 171101001728 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 171101001729 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 171101001730 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 171101001731 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001732 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001733 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001734 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 171101001735 G5 domain; Region: G5; pfam07501 171101001736 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 171101001737 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 171101001738 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 171101001739 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 171101001740 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 171101001741 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 171101001742 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 171101001743 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 171101001744 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 171101001745 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 171101001746 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 171101001747 catalytic residues [active] 171101001748 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 171101001749 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 171101001750 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 171101001751 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 171101001752 active site 171101001753 phosphorylation site [posttranslational modification] 171101001754 intermolecular recognition site; other site 171101001755 dimerization interface [polypeptide binding]; other site 171101001756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101001757 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 171101001758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101001759 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 171101001760 Cache domain; Region: Cache_1; pfam02743 171101001761 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 171101001762 dimerization interface [polypeptide binding]; other site 171101001763 Histidine kinase; Region: His_kinase; pfam06580 171101001764 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 171101001765 ATP binding site [chemical binding]; other site 171101001766 Mg2+ binding site [ion binding]; other site 171101001767 G-X-G motif; other site 171101001768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4475 171101001769 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 171101001770 Proacrosin binding protein sp32; Region: PBP_sp32; pfam07222 171101001771 Neuromodulin; Region: Neuromodulin; pfam06614 171101001772 Mitochondria Localisation Sequence; Region: AIF-MLS; pfam14962 171101001773 G5 domain; Region: G5; pfam07501 171101001774 G5 domain; Region: G5; pfam07501 171101001775 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 171101001776 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 171101001777 aminodeoxychorismate synthase; Provisional; Region: PRK07508 171101001778 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 171101001779 substrate-cofactor binding pocket; other site 171101001780 Aminotransferase class IV; Region: Aminotran_4; pfam01063 171101001781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101001782 catalytic residue [active] 171101001783 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101001784 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 171101001785 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 171101001786 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 171101001787 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 171101001788 nucleotide binding site [chemical binding]; other site 171101001789 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 171101001790 dimerization interface [polypeptide binding]; other site 171101001791 active site 171101001792 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 171101001793 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 171101001794 GTPases [General function prediction only]; Region: HflX; COG2262 171101001795 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 171101001796 HflX GTPase family; Region: HflX; cd01878 171101001797 G1 box; other site 171101001798 GTP/Mg2+ binding site [chemical binding]; other site 171101001799 Switch I region; other site 171101001800 G2 box; other site 171101001801 G3 box; other site 171101001802 Switch II region; other site 171101001803 G4 box; other site 171101001804 G5 box; other site 171101001805 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 171101001806 ribonuclease Z; Region: RNase_Z; TIGR02651 171101001807 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 171101001808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101001809 NAD(P) binding site [chemical binding]; other site 171101001810 active site 171101001811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 171101001812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 171101001813 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 171101001814 dimerization interface [polypeptide binding]; other site 171101001815 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 171101001816 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 171101001817 active site residue [active] 171101001818 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 171101001819 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 171101001820 RNA binding surface [nucleotide binding]; other site 171101001821 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 171101001822 active site 171101001823 uracil binding [chemical binding]; other site 171101001824 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 171101001825 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 171101001826 G1 box; other site 171101001827 putative GEF interaction site [polypeptide binding]; other site 171101001828 GTP/Mg2+ binding site [chemical binding]; other site 171101001829 Switch I region; other site 171101001830 G2 box; other site 171101001831 G3 box; other site 171101001832 Switch II region; other site 171101001833 G4 box; other site 171101001834 G5 box; other site 171101001835 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 171101001836 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 171101001837 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 171101001838 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; pfam09683 171101001839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 171101001840 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 171101001841 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101001842 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101001843 Walker A/P-loop; other site 171101001844 ATP binding site [chemical binding]; other site 171101001845 Q-loop/lid; other site 171101001846 ABC transporter signature motif; other site 171101001847 Walker B; other site 171101001848 D-loop; other site 171101001849 H-loop/switch region; other site 171101001850 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 171101001851 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; cl19125 171101001852 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 171101001853 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101001854 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 171101001855 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 171101001856 active site 171101001857 homodimer interface [polypeptide binding]; other site 171101001858 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 171101001859 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 171101001860 Cell division protein FtsQ; Region: FtsQ; pfam03799 171101001861 Peptidase family M50; Region: Peptidase_M50; pfam02163 171101001862 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 171101001863 active site 171101001864 putative substrate binding region [chemical binding]; other site 171101001865 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 171101001866 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 171101001867 active site 171101001868 dimer interface [polypeptide binding]; other site 171101001869 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101001870 active site 171101001871 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101001872 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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 polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101001881 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 171101001882 Walker A/P-loop; other site 171101001883 ATP binding site [chemical binding]; other site 171101001884 Q-loop/lid; other site 171101001885 ABC transporter signature motif; other site 171101001886 Walker B; other site 171101001887 D-loop; other site 171101001888 H-loop/switch region; other site 171101001889 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101001890 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 171101001891 dimer interface [polypeptide binding]; other site 171101001892 conserved gate region; other site 171101001893 putative PBP binding loops; other site 171101001894 ABC-ATPase subunit interface; other site 171101001895 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101001896 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 171101001897 dimer interface [polypeptide binding]; other site 171101001898 conserved gate region; other site 171101001899 putative PBP binding loops; other site 171101001900 ABC-ATPase subunit interface; other site 171101001901 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 171101001902 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 171101001903 dimer interface [polypeptide binding]; other site 171101001904 putative anticodon binding site; other site 171101001905 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 171101001906 motif 1; other site 171101001907 active site 171101001908 motif 2; other site 171101001909 motif 3; other site 171101001910 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 171101001911 teramer interface [polypeptide binding]; other site 171101001912 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 171101001913 active site 171101001914 FMN binding site [chemical binding]; other site 171101001915 catalytic residues [active] 171101001916 Putative transcription activator [Transcription]; Region: TenA; COG0819 171101001917 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 171101001918 substrate binding site [chemical binding]; other site 171101001919 multimerization interface [polypeptide binding]; other site 171101001920 ATP binding site [chemical binding]; other site 171101001921 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 171101001922 thiamine phosphate binding site [chemical binding]; other site 171101001923 active site 171101001924 pyrophosphate binding site [ion binding]; other site 171101001925 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 171101001926 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 171101001927 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 171101001928 Q-loop/lid; other site 171101001929 ABC transporter signature motif; other site 171101001930 Walker B; other site 171101001931 D-loop; other site 171101001932 H-loop/switch region; other site 171101001933 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 171101001934 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 171101001935 Walker A/P-loop; other site 171101001936 ATP binding site [chemical binding]; other site 171101001937 Q-loop/lid; other site 171101001938 ABC transporter signature motif; other site 171101001939 Walker B; other site 171101001940 D-loop; other site 171101001941 H-loop/switch region; other site 171101001942 Putative transcription activator [Transcription]; Region: TenA; COG0819 171101001943 Predicted membrane protein [Function unknown]; Region: COG4732 171101001944 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 171101001945 substrate binding site [chemical binding]; other site 171101001946 multimerization interface [polypeptide binding]; other site 171101001947 ATP binding site [chemical binding]; other site 171101001948 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 171101001949 thiamine phosphate binding site [chemical binding]; other site 171101001950 active site 171101001951 pyrophosphate binding site [ion binding]; other site 171101001952 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 171101001953 dimer interface [polypeptide binding]; other site 171101001954 substrate binding site [chemical binding]; other site 171101001955 ATP binding site [chemical binding]; other site 171101001956 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 171101001957 Transcriptional regulators [Transcription]; Region: MarR; COG1846 171101001958 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 171101001959 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 171101001960 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 171101001961 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101001962 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101001963 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 171101001964 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 171101001965 PYR/PP interface [polypeptide binding]; other site 171101001966 dimer interface [polypeptide binding]; other site 171101001967 tetramer interface [polypeptide binding]; other site 171101001968 TPP binding site [chemical binding]; other site 171101001969 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 171101001970 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 171101001971 TPP-binding site [chemical binding]; other site 171101001972 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 171101001973 active site 171101001974 DDE superfamily endonuclease; Region: DDE_3; pfam13358 171101001975 Winged helix-turn helix; Region: HTH_29; pfam13551 171101001976 Winged helix-turn helix; Region: HTH_33; pfam13592 171101001977 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 171101001978 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl19057 171101001979 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 171101001980 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 171101001981 Na2 binding site [ion binding]; other site 171101001982 putative substrate binding site 1 [chemical binding]; other site 171101001983 Na binding site 1 [ion binding]; other site 171101001984 putative substrate binding site 2 [chemical binding]; other site 171101001985 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 171101001986 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 171101001987 dimer interface [polypeptide binding]; other site 171101001988 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 171101001989 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 171101001990 putative active site [active] 171101001991 nucleotide binding site [chemical binding]; other site 171101001992 nudix motif; other site 171101001993 putative metal binding site [ion binding]; other site 171101001994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 171101001995 HI0933-like protein; Region: HI0933_like; pfam03486 171101001996 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 171101001997 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 171101001998 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 171101001999 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 171101002000 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 171101002001 catalytic motif [active] 171101002002 Zn binding site [ion binding]; other site 171101002003 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101002004 active site 171101002005 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 171101002006 oligomer interface [polypeptide binding]; other site 171101002007 active site residues [active] 171101002008 hypothetical protein; Provisional; Region: PRK02302 171101002009 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 171101002010 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 171101002011 putative ligand binding site [chemical binding]; other site 171101002012 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 171101002013 TM-ABC transporter signature motif; other site 171101002014 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 171101002015 TM-ABC transporter signature motif; other site 171101002016 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 171101002017 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 171101002018 Walker A/P-loop; other site 171101002019 ATP binding site [chemical binding]; other site 171101002020 Q-loop/lid; other site 171101002021 ABC transporter signature motif; other site 171101002022 Walker B; other site 171101002023 D-loop; other site 171101002024 H-loop/switch region; other site 171101002025 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 171101002026 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 171101002027 Walker A/P-loop; other site 171101002028 ATP binding site [chemical binding]; other site 171101002029 Q-loop/lid; other site 171101002030 ABC transporter signature motif; other site 171101002031 Walker B; other site 171101002032 D-loop; other site 171101002033 H-loop/switch region; other site 171101002034 FOG: CBS domain [General function prediction only]; Region: COG0517 171101002035 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 171101002036 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 171101002037 peptide chain release factor 2; Region: prfB; TIGR00020 171101002038 PCRF domain; Region: PCRF; pfam03462 171101002039 RF-1 domain; Region: RF-1; pfam00472 171101002040 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 171101002041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101002042 Walker A/P-loop; other site 171101002043 ATP binding site [chemical binding]; other site 171101002044 Q-loop/lid; other site 171101002045 ABC transporter signature motif; other site 171101002046 Walker B; other site 171101002047 D-loop; other site 171101002048 H-loop/switch region; other site 171101002049 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 171101002050 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 171101002051 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 171101002052 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 171101002053 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 171101002054 active site turn [active] 171101002055 phosphorylation site [posttranslational modification] 171101002056 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 171101002057 HPr interaction site; other site 171101002058 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101002059 active site 171101002060 phosphorylation site [posttranslational modification] 171101002061 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 171101002062 putative catalytic site [active] 171101002063 putative metal binding site [ion binding]; other site 171101002064 putative phosphate binding site [ion binding]; other site 171101002065 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 171101002066 DEAD-like helicases superfamily; Region: DEXDc; smart00487 171101002067 ATP binding site [chemical binding]; other site 171101002068 Mg++ binding site [ion binding]; other site 171101002069 motif III; other site 171101002070 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 171101002071 nucleotide binding region [chemical binding]; other site 171101002072 ATP-binding site [chemical binding]; other site 171101002073 S-adenosylmethionine synthetase; Validated; Region: PRK05250 171101002074 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 171101002075 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 171101002076 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 171101002077 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 171101002078 active site 171101002079 FMN binding site [chemical binding]; other site 171101002080 substrate binding site [chemical binding]; other site 171101002081 catalytic residues [active] 171101002082 homodimer interface [polypeptide binding]; other site 171101002083 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 171101002084 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 171101002085 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 171101002086 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 171101002087 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 171101002088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 171101002089 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 171101002090 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 171101002091 FeS/SAM binding site; other site 171101002092 VanZ like family; Region: VanZ; pfam04892 171101002093 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 171101002094 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101002095 ABC transporter; Region: ABC_tran_2; pfam12848 171101002096 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101002097 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 171101002098 active site 171101002099 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 171101002100 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 171101002101 G-X-X-G motif; other site 171101002102 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 171101002103 RimM N-terminal domain; Region: RimM; pfam01782 171101002104 PRC-barrel domain; Region: PRC; pfam05239 171101002105 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 171101002106 ATP cone domain; Region: ATP-cone; pfam03477 171101002107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4443 171101002108 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 171101002109 glutathione reductase; Validated; Region: PRK06116 171101002110 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 171101002111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 171101002112 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 171101002113 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 171101002114 HlyD family secretion protein; Region: HlyD_3; pfam13437 171101002115 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101002116 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 171101002117 Walker A/P-loop; other site 171101002118 ATP binding site [chemical binding]; other site 171101002119 Q-loop/lid; other site 171101002120 ABC transporter signature motif; other site 171101002121 Walker B; other site 171101002122 D-loop; other site 171101002123 H-loop/switch region; other site 171101002124 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 171101002125 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 171101002126 FtsX-like permease family; Region: FtsX; pfam02687 171101002127 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 171101002128 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 171101002129 active site 171101002130 HIGH motif; other site 171101002131 KMSKS motif; other site 171101002132 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 171101002133 tRNA binding surface [nucleotide binding]; other site 171101002134 anticodon binding site; other site 171101002135 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 171101002136 dimer interface [polypeptide binding]; other site 171101002137 putative tRNA-binding site [nucleotide binding]; other site 171101002138 Predicted transcriptional regulators [Transcription]; Region: COG1695 171101002139 Domain of unknown function (DUF373); Region: DUF373; cl12079 171101002140 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 171101002141 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 171101002142 active site 171101002143 catalytic tetrad [active] 171101002144 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 171101002145 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 171101002146 classical (c) SDRs; Region: SDR_c; cd05233 171101002147 NAD(P) binding site [chemical binding]; other site 171101002148 active site 171101002149 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 171101002150 nudix motif; other site 171101002151 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 171101002152 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 171101002153 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 171101002154 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 171101002155 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 171101002156 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 171101002157 Zn binding site [ion binding]; other site 171101002158 ERAP1-like C-terminal domain; Region: ERAP1_C; pfam11838 171101002159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101002160 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 171101002161 active site 171101002162 phosphorylation site [posttranslational modification] 171101002163 intermolecular recognition site; other site 171101002164 dimerization interface [polypeptide binding]; other site 171101002165 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 171101002166 DNA binding site [nucleotide binding] 171101002167 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101002168 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 171101002169 dimer interface [polypeptide binding]; other site 171101002170 phosphorylation site [posttranslational modification] 171101002171 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 171101002172 ATP binding site [chemical binding]; other site 171101002173 Mg2+ binding site [ion binding]; other site 171101002174 G-X-G motif; other site 171101002175 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 171101002176 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 171101002177 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 171101002178 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 171101002179 active site 171101002180 catalytic site [active] 171101002181 substrate binding site [chemical binding]; other site 171101002182 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 171101002183 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 171101002184 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 171101002185 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 171101002186 DJ-1 family protein; Region: not_thiJ; TIGR01383 171101002187 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 171101002188 conserved cys residue [active] 171101002189 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 171101002190 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 171101002191 motif II; other site 171101002192 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 171101002193 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 171101002194 ATP binding site [chemical binding]; other site 171101002195 Mg2+ binding site [ion binding]; other site 171101002196 G-X-G motif; other site 171101002197 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 171101002198 anchoring element; other site 171101002199 dimer interface [polypeptide binding]; other site 171101002200 ATP binding site [chemical binding]; other site 171101002201 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 171101002202 active site 171101002203 putative metal-binding site [ion binding]; other site 171101002204 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 171101002205 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 171101002206 Winged helix-turn helix; Region: HTH_29; pfam13551 171101002207 Helix-turn-helix domain; Region: HTH_28; pfam13518 171101002208 Homeodomain-like domain; Region: HTH_32; pfam13565 171101002209 DDE superfamily endonuclease; Region: DDE_3; pfam13358 171101002210 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 171101002211 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 171101002212 nudix motif; other site 171101002213 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101002214 Winged helix-turn helix; Region: HTH_29; pfam13551 171101002215 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 171101002216 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 171101002217 Walker A motif; other site 171101002218 ATP binding site [chemical binding]; other site 171101002219 Walker B motif; other site 171101002220 arginine finger; other site 171101002221 UvrB/uvrC motif; Region: UVR; pfam02151 171101002222 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 171101002223 Walker A motif; other site 171101002224 ATP binding site [chemical binding]; other site 171101002225 Walker B motif; other site 171101002226 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 171101002227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 171101002228 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101002229 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 171101002230 dimer interface [polypeptide binding]; other site 171101002231 conserved gate region; other site 171101002232 putative PBP binding loops; other site 171101002233 ABC-ATPase subunit interface; other site 171101002234 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101002235 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 171101002236 Walker A/P-loop; other site 171101002237 ATP binding site [chemical binding]; other site 171101002238 Q-loop/lid; other site 171101002239 ABC transporter signature motif; other site 171101002240 Walker B; other site 171101002241 D-loop; other site 171101002242 H-loop/switch region; other site 171101002243 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 171101002244 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 171101002245 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 171101002246 homodimer interface [polypeptide binding]; other site 171101002247 NADP binding site [chemical binding]; other site 171101002248 substrate binding site [chemical binding]; other site 171101002249 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 171101002250 putative substrate binding site [chemical binding]; other site 171101002251 putative ATP binding site [chemical binding]; other site 171101002252 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 171101002253 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101002254 active site 171101002255 dimer interface [polypeptide binding]; other site 171101002256 phosphopentomutase; Provisional; Region: PRK05362 171101002257 purine nucleoside phosphorylase; Provisional; Region: PRK08202 171101002258 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 171101002259 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 171101002260 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 171101002261 topology modulation protein; Provisional; Region: PRK07261 171101002262 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 171101002263 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 171101002264 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 171101002265 ATP-binding site [chemical binding]; other site 171101002266 CoA-binding site [chemical binding]; other site 171101002267 Mg2+-binding site [ion binding]; other site 171101002268 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 171101002269 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 171101002270 S-adenosylmethionine binding site [chemical binding]; other site 171101002271 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 171101002272 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 171101002273 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 171101002274 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 171101002275 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 171101002276 intersubunit interface [polypeptide binding]; other site 171101002277 active site 171101002278 catalytic residue [active] 171101002279 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 171101002280 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 171101002281 active site 171101002282 catalytic motif [active] 171101002283 Zn binding site [ion binding]; other site 171101002284 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 171101002285 ligand binding site [chemical binding]; other site 171101002286 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 171101002287 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 171101002288 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 171101002289 Walker A/P-loop; other site 171101002290 ATP binding site [chemical binding]; other site 171101002291 Q-loop/lid; other site 171101002292 ABC transporter signature motif; other site 171101002293 Walker B; other site 171101002294 D-loop; other site 171101002295 H-loop/switch region; other site 171101002296 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 171101002297 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 171101002298 TM-ABC transporter signature motif; other site 171101002299 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 171101002300 TM-ABC transporter signature motif; other site 171101002301 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 171101002302 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 171101002303 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 171101002304 ATP binding site [chemical binding]; other site 171101002305 Mg2+ binding site [ion binding]; other site 171101002306 G-X-G motif; other site 171101002307 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 171101002308 anchoring element; other site 171101002309 dimer interface [polypeptide binding]; other site 171101002310 ATP binding site [chemical binding]; other site 171101002311 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 171101002312 active site 171101002313 metal binding site [ion binding]; metal-binding site 171101002314 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 171101002315 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 171101002316 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 171101002317 CAP-like domain; other site 171101002318 active site 171101002319 primary dimer interface [polypeptide binding]; other site 171101002320 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101002321 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 171101002322 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 171101002323 homodimer interface [polypeptide binding]; other site 171101002324 substrate-cofactor binding pocket; other site 171101002325 catalytic residue [active] 171101002326 Predicted membrane protein [Function unknown]; Region: COG3819 171101002327 Predicted membrane protein [Function unknown]; Region: COG3817 171101002328 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 171101002329 putative substrate binding pocket [chemical binding]; other site 171101002330 AC domain interface; other site 171101002331 catalytic triad [active] 171101002332 AB domain interface; other site 171101002333 interchain disulfide; other site 171101002334 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 171101002335 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 171101002336 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 171101002337 RNA binding site [nucleotide binding]; other site 171101002338 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 171101002339 RNA binding site [nucleotide binding]; other site 171101002340 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 171101002341 RNA binding site [nucleotide binding]; other site 171101002342 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 171101002343 RNA binding site [nucleotide binding]; other site 171101002344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002345 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 171101002346 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 171101002347 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 171101002348 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 171101002349 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 171101002350 Walker A motif; other site 171101002351 ATP binding site [chemical binding]; other site 171101002352 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 171101002353 Walker B motif; other site 171101002354 arginine finger; other site 171101002355 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 171101002356 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 171101002357 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 171101002358 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 171101002359 Walker A/P-loop; other site 171101002360 ATP binding site [chemical binding]; other site 171101002361 Q-loop/lid; other site 171101002362 ABC transporter signature motif; other site 171101002363 Walker B; other site 171101002364 D-loop; other site 171101002365 H-loop/switch region; other site 171101002366 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 171101002367 FeS assembly protein SufD; Region: sufD; TIGR01981 171101002368 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 171101002369 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 171101002370 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 171101002371 catalytic residue [active] 171101002372 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 171101002373 trimerization site [polypeptide binding]; other site 171101002374 active site 171101002375 FeS assembly protein SufB; Region: sufB; TIGR01980 171101002376 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 171101002377 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 171101002378 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 171101002379 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 171101002380 Domain of unknown function DUF20; Region: UPF0118; pfam01594 171101002381 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 171101002382 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 171101002383 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 171101002384 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 171101002385 putative substrate binding site [chemical binding]; other site 171101002386 putative ATP binding site [chemical binding]; other site 171101002387 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 171101002388 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 171101002389 active site 171101002390 phosphorylation site [posttranslational modification] 171101002391 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 171101002392 active site 171101002393 P-loop; other site 171101002394 phosphorylation site [posttranslational modification] 171101002395 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 171101002396 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 171101002397 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 171101002398 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 171101002399 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 171101002400 endonuclease 4-like protein; Provisional; Region: PTZ00372 171101002401 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 171101002402 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 171101002403 catalytic residue [active] 171101002404 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 171101002405 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 171101002406 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 171101002407 Ligand Binding Site [chemical binding]; other site 171101002408 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 171101002409 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 171101002410 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 171101002411 HsdM N-terminal domain; Region: HsdM_N; pfam12161 171101002412 Methyltransferase domain; Region: Methyltransf_26; pfam13659 171101002413 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 171101002414 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 171101002415 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 171101002416 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 171101002417 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 171101002418 ATP binding site [chemical binding]; other site 171101002419 putative Mg++ binding site [ion binding]; other site 171101002420 Helicase conserved C-terminal domain; Region: Helicase_C; cl17351 171101002421 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 171101002422 Arginine repressor [Transcription]; Region: ArgR; COG1438 171101002423 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 171101002424 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 171101002425 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 171101002426 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 171101002427 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 171101002428 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 171101002429 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 171101002430 active site 171101002431 PHP Thumb interface [polypeptide binding]; other site 171101002432 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 171101002433 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 171101002434 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 171101002435 generic binding surface II; other site 171101002436 generic binding surface I; other site 171101002437 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 171101002438 active site 171101002439 ADP/pyrophosphate binding site [chemical binding]; other site 171101002440 dimerization interface [polypeptide binding]; other site 171101002441 allosteric effector site; other site 171101002442 fructose-1,6-bisphosphate binding site; other site 171101002443 pyruvate kinase; Provisional; Region: PRK05826 171101002444 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 171101002445 domain interfaces; other site 171101002446 active site 171101002447 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 171101002448 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 171101002449 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 171101002450 Predicted membrane protein [Function unknown]; Region: COG3689 171101002451 Predicted permeases [General function prediction only]; Region: COG0701 171101002452 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 171101002453 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 171101002454 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 171101002455 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 171101002456 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 171101002457 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 171101002458 RNA binding site [nucleotide binding]; other site 171101002459 hypothetical protein; Provisional; Region: PRK04351 171101002460 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 171101002461 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101002462 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 171101002463 Walker A/P-loop; other site 171101002464 ATP binding site [chemical binding]; other site 171101002465 Q-loop/lid; other site 171101002466 ABC transporter signature motif; other site 171101002467 Walker B; other site 171101002468 D-loop; other site 171101002469 H-loop/switch region; other site 171101002470 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 171101002471 FtsX-like permease family; Region: FtsX; pfam02687 171101002472 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 171101002473 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 171101002474 Helix-turn-helix domain; Region: HTH_38; pfam13936 171101002475 Integrase core domain; Region: rve; pfam00665 171101002476 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 171101002477 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 171101002478 homodimer interface [polypeptide binding]; other site 171101002479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101002480 catalytic residue [active] 171101002481 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 171101002482 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 171101002483 S-adenosylmethionine binding site [chemical binding]; other site 171101002484 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 171101002485 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 171101002486 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 171101002487 dimer interface [polypeptide binding]; other site 171101002488 active site 171101002489 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101002490 catalytic residues [active] 171101002491 substrate binding site [chemical binding]; other site 171101002492 agmatine deiminase; Provisional; Region: PRK13551 171101002493 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 171101002494 putative active site; other site 171101002495 catalytic triad [active] 171101002496 putative dimer interface [polypeptide binding]; other site 171101002497 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 171101002498 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 171101002499 active site 171101002500 motif I; other site 171101002501 motif II; other site 171101002502 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101002503 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 171101002504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 171101002505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 171101002506 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 171101002507 dimerization interface [polypeptide binding]; other site 171101002508 lipoprotein signal peptidase; Provisional; Region: PRK14797 171101002509 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 171101002510 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 171101002511 RNA binding surface [nucleotide binding]; other site 171101002512 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 171101002513 active site 171101002514 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 171101002515 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 171101002516 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101002517 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 171101002518 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 171101002519 nucleotide binding site [chemical binding]; other site 171101002520 homotetrameric interface [polypeptide binding]; other site 171101002521 putative phosphate binding site [ion binding]; other site 171101002522 putative allosteric binding site; other site 171101002523 PUA domain; Region: PUA; pfam01472 171101002524 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 171101002525 putative catalytic cysteine [active] 171101002526 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 171101002527 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 171101002528 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 171101002529 thymidylate kinase; Validated; Region: tmk; PRK00698 171101002530 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 171101002531 TMP-binding site; other site 171101002532 ATP-binding site [chemical binding]; other site 171101002533 DNA polymerase III subunit delta'; Validated; Region: PRK07276 171101002534 DNA polymerase III subunit delta'; Validated; Region: PRK08485 171101002535 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 171101002536 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 171101002537 putative SAM binding site [chemical binding]; other site 171101002538 putative homodimer interface [polypeptide binding]; other site 171101002539 Uncharacterized conserved protein [Function unknown]; Region: COG4283 171101002540 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 171101002541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101002542 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 171101002543 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 171101002544 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 171101002545 Glucose inhibited division protein A; Region: GIDA; pfam01134 171101002546 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 171101002547 putative nucleotide binding site [chemical binding]; other site 171101002548 uridine monophosphate binding site [chemical binding]; other site 171101002549 homohexameric interface [polypeptide binding]; other site 171101002550 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 171101002551 hinge region; other site 171101002552 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 171101002553 S1 domain; Region: S1_2; pfam13509 171101002554 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 171101002555 hypothetical protein; Provisional; Region: PRK13672 171101002556 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 171101002557 PhoH-like protein; Region: PhoH; cl17668 171101002558 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 171101002559 ATP binding site [chemical binding]; other site 171101002560 putative Mg++ binding site [ion binding]; other site 171101002561 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 171101002562 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101002563 Coenzyme A binding pocket [chemical binding]; other site 171101002564 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 171101002565 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 171101002566 SLBB domain; Region: SLBB; pfam10531 171101002567 comEA protein; Region: comE; TIGR01259 171101002568 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 171101002569 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 171101002570 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 171101002571 Competence protein; Region: Competence; pfam03772 171101002572 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 171101002573 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 171101002574 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 171101002575 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 171101002576 Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]; Region: InfC; COG0290 171101002577 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 171101002578 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 171101002579 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 171101002580 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 171101002581 23S rRNA binding site [nucleotide binding]; other site 171101002582 L21 binding site [polypeptide binding]; other site 171101002583 L13 binding site [polypeptide binding]; other site 171101002584 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 171101002585 dimer interface [polypeptide binding]; other site 171101002586 active site 171101002587 metal binding site [ion binding]; metal-binding site 171101002588 glutathione binding site [chemical binding]; other site 171101002589 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 171101002590 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 171101002591 FAD binding pocket [chemical binding]; other site 171101002592 FAD binding motif [chemical binding]; other site 171101002593 phosphate binding motif [ion binding]; other site 171101002594 beta-alpha-beta structure motif; other site 171101002595 NAD binding pocket [chemical binding]; other site 171101002596 Iron coordination center [ion binding]; other site 171101002597 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 171101002598 heterodimer interface [polypeptide binding]; other site 171101002599 active site 171101002600 FMN binding site [chemical binding]; other site 171101002601 homodimer interface [polypeptide binding]; other site 171101002602 substrate binding site [chemical binding]; other site 171101002603 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101002604 Lysozyme subfamily 2; Region: LYZ2; smart00047 171101002605 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 171101002606 Domain of unknown function (DUF814); Region: DUF814; pfam05670 171101002607 metal-binding heat shock protein; Provisional; Region: PRK00016 171101002608 Integral membrane undecaprenol kinase and similar enzymes; Region: UDPK_IM_like; cd14265 171101002609 trimer interface [polypeptide binding]; other site 171101002610 putative active site [active] 171101002611 Zn binding site [ion binding]; other site 171101002612 GTPase Era; Reviewed; Region: era; PRK00089 171101002613 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 171101002614 G1 box; other site 171101002615 GTP/Mg2+ binding site [chemical binding]; other site 171101002616 Switch I region; other site 171101002617 G2 box; other site 171101002618 Switch II region; other site 171101002619 G3 box; other site 171101002620 G4 box; other site 171101002621 G5 box; other site 171101002622 KH domain; Region: KH_2; pfam07650 171101002623 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 171101002624 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 171101002625 DNA binding site [nucleotide binding] 171101002626 catalytic residue [active] 171101002627 H2TH interface [polypeptide binding]; other site 171101002628 putative catalytic residues [active] 171101002629 turnover-facilitating residue; other site 171101002630 intercalation triad [nucleotide binding]; other site 171101002631 8OG recognition residue [nucleotide binding]; other site 171101002632 putative reading head residues; other site 171101002633 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 171101002634 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 171101002635 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 171101002636 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 171101002637 CoA-binding site [chemical binding]; other site 171101002638 drug efflux system protein MdtG; Provisional; Region: PRK09874 171101002639 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 171101002640 putative substrate translocation pore; other site 171101002641 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 171101002642 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 171101002643 ribonuclease R; Region: RNase_R; TIGR02063 171101002644 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 171101002645 RNB domain; Region: RNB; pfam00773 171101002646 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 171101002647 RNA binding site [nucleotide binding]; other site 171101002648 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 171101002649 SmpB-tmRNA interface; other site 171101002650 tellurite resistance protein TehB; Provisional; Region: PRK12335 171101002651 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 171101002652 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 171101002653 S-adenosylmethionine binding site [chemical binding]; other site 171101002654 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 171101002655 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 171101002656 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 171101002657 active site 171101002658 Zn binding site [ion binding]; other site 171101002659 Methyltransferase domain; Region: Methyltransf_31; pfam13847 171101002660 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 171101002661 S-adenosylmethionine binding site [chemical binding]; other site 171101002662 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 171101002663 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 171101002664 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 171101002665 catalytic core [active] 171101002666 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 171101002667 putative deacylase active site [active] 171101002668 Predicted membrane protein [Function unknown]; Region: COG2035 171101002669 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 171101002670 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 171101002671 active site 171101002672 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 171101002673 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 171101002674 Substrate binding site; other site 171101002675 Mg++ binding site; other site 171101002676 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 171101002677 active site 171101002678 substrate binding site [chemical binding]; other site 171101002679 CoA binding site [chemical binding]; other site 171101002680 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 171101002681 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 171101002682 dimer interface [polypeptide binding]; other site 171101002683 ADP-ribose binding site [chemical binding]; other site 171101002684 active site 171101002685 nudix motif; other site 171101002686 metal binding site [ion binding]; metal-binding site 171101002687 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 171101002688 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 171101002689 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 171101002690 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 171101002691 active site 171101002692 catalytic site [active] 171101002693 substrate binding site [chemical binding]; other site 171101002694 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 171101002695 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 171101002696 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 171101002697 putative active site [active] 171101002698 catalytic site [active] 171101002699 putative metal binding site [ion binding]; other site 171101002700 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cd12087 171101002701 dimer interface [polypeptide binding]; other site 171101002702 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 171101002703 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 171101002704 catalytic residues [active] 171101002705 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 171101002706 amino acid transporter; Region: 2A0306; TIGR00909 171101002707 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 171101002708 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 171101002709 metal binding site [ion binding]; metal-binding site 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 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 171101002721 metal binding site [ion binding]; metal-binding site 171101002722 dimer interface [polypeptide binding]; other site 171101002723 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 171101002724 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 171101002725 C-terminal domain interface [polypeptide binding]; other site 171101002726 active site 171101002727 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 171101002728 active site 171101002729 N-terminal domain interface [polypeptide binding]; other site 171101002730 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 171101002731 Predicted membrane protein [Function unknown]; Region: COG2246 171101002732 Predicted membrane protein [Function unknown]; Region: COG4708 171101002733 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 171101002734 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 171101002735 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 171101002736 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 171101002737 dimer interface [polypeptide binding]; other site 171101002738 active site 171101002739 catalytic residue [active] 171101002740 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 171101002741 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 171101002742 trmE is a tRNA modification GTPase; Region: trmE; cd04164 171101002743 G1 box; other site 171101002744 GTP/Mg2+ binding site [chemical binding]; other site 171101002745 Switch I region; other site 171101002746 G2 box; other site 171101002747 Switch II region; other site 171101002748 G3 box; other site 171101002749 G4 box; other site 171101002750 G5 box; other site 171101002751 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 171101002752 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 171101002753 active site 1 [active] 171101002754 dimer interface [polypeptide binding]; other site 171101002755 hexamer interface [polypeptide binding]; other site 171101002756 active site 2 [active] 171101002757 thymidine kinase; Provisional; Region: PRK04296 171101002758 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101002759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101002760 Coenzyme A binding pocket [chemical binding]; other site 171101002761 peptide chain release factor 1; Validated; Region: prfA; PRK00591 171101002762 This domain is found in peptide chain release factors; Region: PCRF; smart00937 171101002763 RF-1 domain; Region: RF-1; pfam00472 171101002764 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 171101002765 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 171101002766 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 171101002767 S-adenosylmethionine binding site [chemical binding]; other site 171101002768 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 171101002769 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 171101002770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101002771 Coenzyme A binding pocket [chemical binding]; other site 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 active site 171101002775 glycine-pyridoxal phosphate binding site [chemical binding]; other site 171101002776 folate binding site [chemical binding]; other site 171101002777 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 171101002778 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 171101002779 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 171101002780 Lysozyme-like; Region: Lysozyme_like; pfam13702 171101002781 Predicted secreted protein [Function unknown]; Region: COG4086 171101002782 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 171101002783 TRAM domain; Region: TRAM; cl01282 171101002784 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 171101002785 S-adenosylmethionine binding site [chemical binding]; other site 171101002786 Predicted transcriptional regulator [Transcription]; Region: COG3655 171101002787 sequence-specific DNA binding site [nucleotide binding]; other site 171101002788 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 171101002789 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 171101002790 siderophore binding site; other site 171101002791 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 171101002792 ABC-ATPase subunit interface; other site 171101002793 dimer interface [polypeptide binding]; other site 171101002794 putative PBP binding regions; other site 171101002795 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 171101002796 ABC-ATPase subunit interface; other site 171101002797 dimer interface [polypeptide binding]; other site 171101002798 putative PBP binding regions; other site 171101002799 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 171101002800 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 171101002801 Walker A/P-loop; other site 171101002802 ATP binding site [chemical binding]; other site 171101002803 Q-loop/lid; other site 171101002804 ABC transporter signature motif; other site 171101002805 Walker B; other site 171101002806 D-loop; other site 171101002807 H-loop/switch region; other site 171101002808 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 171101002809 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 171101002810 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 171101002811 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 171101002812 catalytic residues [active] 171101002813 catalytic nucleophile [active] 171101002814 Recombinase; Region: Recombinase; pfam07508 171101002815 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 171101002816 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 171101002817 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 171101002818 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 171101002819 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 171101002820 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 171101002821 homodimer interface [polypeptide binding]; other site 171101002822 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 171101002823 Alpha amylase, catalytic domain; Region: Alpha-amylase; pfam00128 171101002824 active site 171101002825 homodimer interface [polypeptide binding]; other site 171101002826 catalytic site [active] 171101002827 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101002828 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 171101002829 non-specific DNA binding site [nucleotide binding]; other site 171101002830 salt bridge; other site 171101002831 sequence-specific DNA binding site [nucleotide binding]; other site 171101002832 Zeta toxin; Region: Zeta_toxin; pfam06414 171101002833 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 171101002834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 171101002835 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 171101002836 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 171101002837 Lantibiotic streptin immunity protein; Region: Streptin-Immun; pfam11083 171101002838 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 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 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 171101002845 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 171101002846 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 171101002847 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 171101002848 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 171101002849 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 171101002850 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 171101002851 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 171101002852 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 171101002853 putative trimer interface [polypeptide binding]; other site 171101002854 putative CoA binding site [chemical binding]; other site 171101002855 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 171101002856 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 171101002857 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 171101002858 acyl-activating enzyme (AAE) consensus motif; other site 171101002859 acyl-activating enzyme (AAE) consensus motif; other site 171101002860 AMP binding site [chemical binding]; other site 171101002861 active site 171101002862 CoA binding site [chemical binding]; other site 171101002863 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 171101002864 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 171101002865 motif 1; other site 171101002866 dimer interface [polypeptide binding]; other site 171101002867 active site 171101002868 motif 2; other site 171101002869 motif 3; other site 171101002870 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 171101002871 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 171101002872 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 171101002873 putative trimer interface [polypeptide binding]; other site 171101002874 putative CoA binding site [chemical binding]; other site 171101002875 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101002876 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 171101002877 putative substrate translocation pore; other site 171101002878 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101002879 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 171101002880 non-specific DNA binding site [nucleotide binding]; other site 171101002881 salt bridge; other site 171101002882 sequence-specific DNA binding site [nucleotide binding]; other site 171101002883 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 171101002884 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 171101002885 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 171101002886 zinc binding site [ion binding]; other site 171101002887 putative ligand binding site [chemical binding]; other site 171101002888 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 171101002889 TM-ABC transporter signature motif; other site 171101002890 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 171101002891 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101002892 Walker A/P-loop; other site 171101002893 ATP binding site [chemical binding]; other site 171101002894 Q-loop/lid; other site 171101002895 ABC transporter signature motif; other site 171101002896 Walker B; other site 171101002897 D-loop; other site 171101002898 H-loop/switch region; other site 171101002899 DNA primase; Validated; Region: dnaG; PRK05667 171101002900 CHC2 zinc finger; Region: zf-CHC2; pfam01807 171101002901 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 171101002902 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 171101002903 active site 171101002904 metal binding site [ion binding]; metal-binding site 171101002905 interdomain interaction site; other site 171101002906 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 171101002907 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 171101002908 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 171101002909 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 171101002910 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 171101002911 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 171101002912 DNA binding residues [nucleotide binding] 171101002913 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 171101002914 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 171101002915 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 171101002916 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 171101002917 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 171101002918 putative ADP-binding pocket [chemical binding]; other site 171101002919 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 171101002920 GTPase CgtA; Reviewed; Region: obgE; PRK12297 171101002921 GTP1/OBG; Region: GTP1_OBG; pfam01018 171101002922 Obg GTPase; Region: Obg; cd01898 171101002923 G1 box; other site 171101002924 GTP/Mg2+ binding site [chemical binding]; other site 171101002925 Switch I region; other site 171101002926 G2 box; other site 171101002927 G3 box; other site 171101002928 Switch II region; other site 171101002929 G4 box; other site 171101002930 G5 box; other site 171101002931 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 171101002932 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002933 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 171101002934 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 171101002935 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 171101002936 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 171101002937 hinge; other site 171101002938 active site 171101002939 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 171101002940 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 171101002941 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 171101002942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 171101002943 DNA-binding site [nucleotide binding]; DNA binding site 171101002944 DRTGG domain; Region: DRTGG; pfam07085 171101002945 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 171101002946 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 171101002947 active site 2 [active] 171101002948 active site 1 [active] 171101002949 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 171101002950 active site 171101002951 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 171101002952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101002953 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 171101002954 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 171101002955 Part of AAA domain; Region: AAA_19; pfam13245 171101002956 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 171101002957 hypothetical protein; Reviewed; Region: PRK00024 171101002958 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 171101002959 MPN+ (JAMM) motif; other site 171101002960 Zinc-binding site [ion binding]; other site 171101002961 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 171101002962 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 171101002963 catalytic triad [active] 171101002964 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 171101002965 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 171101002966 CoA binding domain; Region: CoA_binding; pfam02629 171101002967 Uncharacterized protein conserved in Streptococci; Region: SP_1775_like; cl19119 171101002968 oligomer interface [polypeptide binding]; other site 171101002969 putative ligand binding site [chemical binding]; other site 171101002970 Putative amino acid metabolizm; Region: DUF1831; pfam08866 171101002971 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 171101002972 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 171101002973 catalytic residue [active] 171101002974 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 171101002975 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 171101002976 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101002977 active site 171101002978 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 171101002979 putative active site [active] 171101002980 putative metal binding residues [ion binding]; other site 171101002981 signature motif; other site 171101002982 putative triphosphate binding site [ion binding]; other site 171101002983 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 171101002984 synthetase active site [active] 171101002985 NTP binding site [chemical binding]; other site 171101002986 metal binding site [ion binding]; metal-binding site 171101002987 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 171101002988 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 171101002989 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 171101002990 RNA binding surface [nucleotide binding]; other site 171101002991 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 171101002992 active site 171101002993 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 171101002994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101002995 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 171101002996 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 171101002997 hypothetical protein; Validated; Region: PRK00153 171101002998 Predicted membrane protein [Function unknown]; Region: COG3619 171101002999 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 171101003000 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 171101003001 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 171101003002 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 171101003003 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 171101003004 active site 171101003005 Riboflavin kinase; Region: Flavokinase; smart00904 171101003006 Uncharacterized conserved protein [Function unknown]; Region: COG1284 171101003007 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101003008 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101003009 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 171101003010 EDD domain protein, DegV family; Region: DegV; TIGR00762 171101003011 histone-like DNA-binding protein HU; Region: HU; cd13831 171101003012 dimer interface [polypeptide binding]; other site 171101003013 DNA binding site [nucleotide binding] 171101003014 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 171101003015 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101003016 ABC transporter; Region: ABC_tran_2; pfam12848 171101003017 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101003018 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 171101003019 non-specific DNA binding site [nucleotide binding]; other site 171101003020 salt bridge; other site 171101003021 sequence-specific DNA binding site [nucleotide binding]; other site 171101003022 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101003023 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101003024 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 171101003025 putative substrate translocation pore; other site 171101003026 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 171101003027 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 171101003028 nucleotide binding pocket [chemical binding]; other site 171101003029 K-X-D-G motif; other site 171101003030 catalytic site [active] 171101003031 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 171101003032 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 171101003033 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 171101003034 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 171101003035 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 171101003036 Dimer interface [polypeptide binding]; other site 171101003037 BRCT sequence motif; other site 171101003038 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 171101003039 pullulanase, type I; Region: pulA_typeI; TIGR02104 171101003040 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 171101003041 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 171101003042 Ca binding site [ion binding]; other site 171101003043 active site 171101003044 catalytic site [active] 171101003045 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 171101003046 tetrameric interface [polypeptide binding]; other site 171101003047 activator binding site; other site 171101003048 NADP binding site [chemical binding]; other site 171101003049 substrate binding site [chemical binding]; other site 171101003050 catalytic residues [active] 171101003051 glycogen branching enzyme; Provisional; Region: PRK12313 171101003052 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 171101003053 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 171101003054 active site 171101003055 catalytic site [active] 171101003056 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 171101003057 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 171101003058 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 171101003059 ligand binding site; other site 171101003060 oligomer interface; other site 171101003061 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 171101003062 dimer interface [polypeptide binding]; other site 171101003063 N-terminal domain interface [polypeptide binding]; other site 171101003064 sulfate 1 binding site; other site 171101003065 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 171101003066 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 171101003067 active site 171101003068 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 171101003069 dimer interface [polypeptide binding]; other site 171101003070 N-terminal domain interface [polypeptide binding]; other site 171101003071 sulfate 1 binding site; other site 171101003072 glycogen synthase; Provisional; Region: glgA; PRK00654 171101003073 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 171101003074 ADP-binding pocket [chemical binding]; other site 171101003075 homodimer interface [polypeptide binding]; other site 171101003076 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 171101003077 Uncharacterized conserved protein [Function unknown]; Region: COG5506 171101003078 enolase; Provisional; Region: eno; PRK00077 171101003079 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 171101003080 dimer interface [polypeptide binding]; other site 171101003081 metal binding site [ion binding]; metal-binding site 171101003082 substrate binding pocket [chemical binding]; other site 171101003083 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101003084 Winged helix-turn helix; Region: HTH_29; pfam13551 171101003085 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 171101003086 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl19914 171101003087 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 171101003088 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 171101003089 Part of AAA domain; Region: AAA_19; pfam13245 171101003090 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 171101003091 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 171101003092 MAEBL; Provisional; Region: PTZ00121 171101003093 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101003094 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 171101003095 G5 domain; Region: G5; pfam07501 171101003096 hypothetical protein; Provisional; Region: PHA03151 171101003097 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 171101003098 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 171101003099 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 171101003100 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 171101003101 GTP/Mg2+ binding site [chemical binding]; other site 171101003102 G4 box; other site 171101003103 G5 box; other site 171101003104 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 171101003105 G1 box; other site 171101003106 G1 box; other site 171101003107 GTP/Mg2+ binding site [chemical binding]; other site 171101003108 Switch I region; other site 171101003109 G2 box; other site 171101003110 G2 box; other site 171101003111 G3 box; other site 171101003112 G3 box; other site 171101003113 Switch II region; other site 171101003114 Switch II region; other site 171101003115 G5 box; other site 171101003116 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 171101003117 RNA/DNA hybrid binding site [nucleotide binding]; other site 171101003118 active site 171101003119 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 171101003120 Cl- selectivity filter; other site 171101003121 Cl- binding residues [ion binding]; other site 171101003122 pore gating glutamate residue; other site 171101003123 dimer interface [polypeptide binding]; other site 171101003124 H+/Cl- coupling transport residue; other site 171101003125 TrkA-C domain; Region: TrkA_C; pfam02080 171101003126 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 171101003127 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 171101003128 active site 171101003129 DNA binding site [nucleotide binding] 171101003130 Int/Topo IB signature motif; other site 171101003131 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 171101003132 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 171101003133 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 171101003134 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 171101003135 E3 interaction surface; other site 171101003136 lipoyl attachment site [posttranslational modification]; other site 171101003137 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 171101003138 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 171101003139 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 171101003140 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 171101003141 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 171101003142 e3 binding domain; Region: E3_binding; pfam02817 171101003143 e3 binding domain; Region: E3_binding; pfam02817 171101003144 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 171101003145 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 171101003146 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 171101003147 alpha subunit interface [polypeptide binding]; other site 171101003148 TPP binding site [chemical binding]; other site 171101003149 heterodimer interface [polypeptide binding]; other site 171101003150 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 171101003151 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 171101003152 tetramer interface [polypeptide binding]; other site 171101003153 TPP-binding site [chemical binding]; other site 171101003154 heterodimer interface [polypeptide binding]; other site 171101003155 phosphorylation loop region [posttranslational modification] 171101003156 multidrug efflux protein; Reviewed; Region: PRK01766 171101003157 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 171101003158 cation binding site [ion binding]; other site 171101003159 dihydroorotase; Validated; Region: pyrC; PRK09357 171101003160 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 171101003161 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 171101003162 active site 171101003163 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 171101003164 putative active site [active] 171101003165 nucleotide binding site [chemical binding]; other site 171101003166 nudix motif; other site 171101003167 putative metal binding site [ion binding]; other site 171101003168 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 171101003169 ligand binding site [chemical binding]; other site 171101003170 active site 171101003171 UGI interface [polypeptide binding]; other site 171101003172 catalytic site [active] 171101003173 HAD-hyrolase-like; Region: Hydrolase_like; cl19142 171101003174 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 171101003175 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 171101003176 motif II; other site 171101003177 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101003178 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003179 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003180 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003181 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 171101003182 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003183 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003184 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 171101003185 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 171101003186 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 171101003187 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 171101003188 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 171101003189 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 171101003190 dimerization domain swap beta strand [polypeptide binding]; other site 171101003191 regulatory protein interface [polypeptide binding]; other site 171101003192 active site 171101003193 regulatory phosphorylation site [posttranslational modification]; other site 171101003194 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 171101003195 catalytic residues [active] 171101003196 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 171101003197 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 171101003198 Class I ribonucleotide reductase; Region: RNR_I; cd01679 171101003199 active site 171101003200 dimer interface [polypeptide binding]; other site 171101003201 catalytic residues [active] 171101003202 effector binding site; other site 171101003203 R2 peptide binding site; other site 171101003204 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 171101003205 dimer interface [polypeptide binding]; other site 171101003206 putative radical transfer pathway; other site 171101003207 diiron center [ion binding]; other site 171101003208 tyrosyl radical; other site 171101003209 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 171101003210 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 171101003211 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 171101003212 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 171101003213 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 171101003214 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 171101003215 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 171101003216 active site 171101003217 P-loop; other site 171101003218 phosphorylation site [posttranslational modification] 171101003219 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 171101003220 methionine cluster; other site 171101003221 active site 171101003222 phosphorylation site [posttranslational modification] 171101003223 metal binding site [ion binding]; metal-binding site 171101003224 CAT RNA binding domain; Region: CAT_RBD; smart01061 171101003225 transcriptional antiterminator BglG; Provisional; Region: PRK09772 171101003226 PRD domain; Region: PRD; pfam00874 171101003227 PRD domain; Region: PRD; pfam00874 171101003228 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 171101003229 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 171101003230 putative substrate binding site [chemical binding]; other site 171101003231 putative ATP binding site [chemical binding]; other site 171101003232 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 171101003233 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 171101003234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101003235 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 171101003236 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 171101003237 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 171101003238 Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]; Region: SgaB; COG3414 171101003239 active site 171101003240 P-loop; other site 171101003241 phosphorylation site [posttranslational modification] 171101003242 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 171101003243 active site 171101003244 phosphorylation site [posttranslational modification] 171101003245 GTP-binding protein LepA; Provisional; Region: PRK05433 171101003246 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 171101003247 G1 box; other site 171101003248 putative GEF interaction site [polypeptide binding]; other site 171101003249 GTP/Mg2+ binding site [chemical binding]; other site 171101003250 Switch I region; other site 171101003251 G2 box; other site 171101003252 G3 box; other site 171101003253 Switch II region; other site 171101003254 G4 box; other site 171101003255 G5 box; other site 171101003256 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 171101003257 Elongation Factor G, domain II; Region: EFG_II; pfam14492 171101003258 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 171101003259 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 171101003260 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 171101003261 active site 171101003262 metal binding site [ion binding]; metal-binding site 171101003263 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 171101003264 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 171101003265 Walker A/P-loop; other site 171101003266 ATP binding site [chemical binding]; other site 171101003267 Q-loop/lid; other site 171101003268 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 171101003269 ABC transporter signature motif; other site 171101003270 Walker B; other site 171101003271 D-loop; other site 171101003272 H-loop/switch region; other site 171101003273 Arginine repressor [Transcription]; Region: ArgR; COG1438 171101003274 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 171101003275 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 171101003276 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 171101003277 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 171101003278 RNA binding surface [nucleotide binding]; other site 171101003279 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 171101003280 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 171101003281 substrate binding pocket [chemical binding]; other site 171101003282 chain length determination region; other site 171101003283 active site lid residues [active] 171101003284 substrate-Mg2+ binding site; other site 171101003285 catalytic residues [active] 171101003286 aspartate-rich region 1; other site 171101003287 aspartate-rich region 2; other site 171101003288 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 171101003289 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 171101003290 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 171101003291 generic binding surface II; other site 171101003292 generic binding surface I; other site 171101003293 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 171101003294 Sugar specificity; other site 171101003295 Pyrimidine base specificity; other site 171101003296 ATP-binding site [chemical binding]; other site 171101003297 Enterocin A Immunity; Region: EntA_Immun; pfam08951 171101003298 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 171101003299 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 171101003300 RNA binding site [nucleotide binding]; other site 171101003301 active site 171101003302 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 171101003303 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 171101003304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 171101003305 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 171101003306 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 171101003307 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 171101003308 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 171101003309 active site 171101003310 catalytic site [active] 171101003311 DNA gyrase subunit A; Validated; Region: PRK05560 171101003312 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 171101003313 CAP-like domain; other site 171101003314 active site 171101003315 primary dimer interface [polypeptide binding]; other site 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 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003321 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 171101003322 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 171101003323 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 171101003324 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101003325 NAD binding site [chemical binding]; other site 171101003326 dimer interface [polypeptide binding]; other site 171101003327 substrate binding site [chemical binding]; other site 171101003328 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 171101003329 Protein of unknown function (DUF1151); Region: DUF1151; pfam06625 171101003330 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 171101003331 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 171101003332 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 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 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 171101003361 Potassium binding sites [ion binding]; other site 171101003362 Cesium cation binding sites [ion binding]; other site 171101003363 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 171101003364 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 171101003365 Predicted membrane protein [Function unknown]; Region: COG4684 171101003366 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 171101003367 HTH domain; Region: HTH_11; pfam08279 171101003368 3H domain; Region: 3H; pfam02829 171101003369 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 171101003370 putative active site [active] 171101003371 nucleotide binding site [chemical binding]; other site 171101003372 nudix motif; other site 171101003373 putative metal binding site [ion binding]; other site 171101003374 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 171101003375 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101003376 Coenzyme A binding pocket [chemical binding]; other site 171101003377 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101003378 excinuclease ABC subunit B; Provisional; Region: PRK05298 171101003379 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 171101003380 ATP binding site [chemical binding]; other site 171101003381 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 171101003382 nucleotide binding region [chemical binding]; other site 171101003383 ATP-binding site [chemical binding]; other site 171101003384 Ultra-violet resistance protein B; Region: UvrB; pfam12344 171101003385 UvrB/uvrC motif; Region: UVR; pfam02151 171101003386 CAAX protease self-immunity; Region: Abi; pfam02517 171101003387 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 171101003388 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101003389 substrate binding pocket [chemical binding]; other site 171101003390 membrane-bound complex binding site; other site 171101003391 hinge residues; other site 171101003392 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 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 substrate binding pocket [chemical binding]; other site 171101003395 membrane-bound complex binding site; other site 171101003396 hinge residues; other site 171101003397 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 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 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; 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; pfam02881 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 active site 171101003423 motif I; other site 171101003424 motif II; other site 171101003425 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101003426 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 171101003427 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 171101003428 active site 171101003429 motif I; other site 171101003430 motif II; other site 171101003431 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101003432 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 171101003433 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 171101003434 Walker A/P-loop; other site 171101003435 ATP binding site [chemical binding]; other site 171101003436 Q-loop/lid; other site 171101003437 HemX; Region: HemX; cl19375 171101003438 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 171101003439 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 171101003440 ABC transporter signature motif; other site 171101003441 Walker B; other site 171101003442 D-loop; other site 171101003443 H-loop/switch region; other site 171101003444 ribonuclease III; Reviewed; Region: rnc; PRK00102 171101003445 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 171101003446 dimerization interface [polypeptide binding]; other site 171101003447 active site 171101003448 metal binding site [ion binding]; metal-binding site 171101003449 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 171101003450 dsRNA binding site [nucleotide binding]; other site 171101003451 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 171101003452 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 171101003453 active site 171101003454 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 171101003455 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 171101003456 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 171101003457 Walker A motif; other site 171101003458 ATP binding site [chemical binding]; other site 171101003459 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 171101003460 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 171101003461 Predicted membrane protein [Function unknown]; Region: COG3326 171101003462 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 171101003463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 171101003464 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 171101003465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 171101003466 DNA topoisomerase I; Validated; Region: PRK05582 171101003467 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 171101003468 active site 171101003469 interdomain interaction site; other site 171101003470 putative metal-binding site [ion binding]; other site 171101003471 nucleotide binding site [chemical binding]; other site 171101003472 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 171101003473 domain I; other site 171101003474 DNA binding groove [nucleotide binding] 171101003475 phosphate binding site [ion binding]; other site 171101003476 domain II; other site 171101003477 domain III; other site 171101003478 nucleotide binding site [chemical binding]; other site 171101003479 catalytic site [active] 171101003480 domain IV; other site 171101003481 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 171101003482 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 171101003483 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 171101003484 Predicted membrane protein [Function unknown]; Region: COG1808 171101003485 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 171101003486 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 171101003487 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 171101003488 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 171101003489 active site 171101003490 metal-binding site 171101003491 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 171101003492 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 171101003493 active site 171101003494 ATP binding site [chemical binding]; other site 171101003495 Phosphotransferase enzyme family; Region: APH; pfam01636 171101003496 substrate 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 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 171101003506 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 171101003507 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 171101003508 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 171101003509 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 171101003510 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 171101003511 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 171101003512 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; pfam02787 171101003513 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 171101003514 ATP-grasp domain; Region: ATP-grasp_4; cl17255 171101003515 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 171101003516 IMP binding site; other site 171101003517 dimer interface [polypeptide binding]; other site 171101003518 interdomain contacts; other site 171101003519 partial ornithine binding site; other site 171101003520 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 171101003521 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 171101003522 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 171101003523 catalytic site [active] 171101003524 subunit interface [polypeptide binding]; other site 171101003525 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 171101003526 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 171101003527 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 171101003528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101003529 active site 171101003530 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 171101003531 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 171101003532 minor groove reading motif; other site 171101003533 helix-hairpin-helix signature motif; other site 171101003534 substrate binding pocket [chemical binding]; other site 171101003535 active site 171101003536 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 171101003537 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 171101003538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101003539 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101003540 heat shock protein HtpX; Provisional; Region: PRK04897 171101003541 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 171101003542 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 171101003543 Methyltransferase domain; Region: Methyltransf_31; pfam13847 171101003544 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 171101003545 S-adenosylmethionine binding site [chemical binding]; other site 171101003546 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 171101003547 Sulfate transporter family; Region: Sulfate_transp; cl19250 171101003548 signal recognition particle protein; Provisional; Region: PRK10867 171101003549 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 171101003550 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 171101003551 P loop; other site 171101003552 GTP binding site [chemical binding]; other site 171101003553 Signal peptide binding domain; Region: SRP_SPB; pfam02978 171101003554 Forkhead N-terminal region; Region: Fork_head_N; pfam08430 171101003555 putative DNA-binding protein; Validated; Region: PRK00118 171101003556 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 171101003557 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 171101003558 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 171101003559 Zn2+ binding site [ion binding]; other site 171101003560 Mg2+ binding site [ion binding]; other site 171101003561 sugar phosphate phosphatase; Provisional; Region: PRK10513 171101003562 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 171101003563 active site 171101003564 motif I; other site 171101003565 motif II; other site 171101003566 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101003567 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 171101003568 camphor resistance protein CrcB; Provisional; Region: PRK14229 171101003569 camphor resistance protein CrcB; Provisional; Region: PRK14221 171101003570 hypothetical protein; Provisional; Region: PRK07248 171101003571 flavodoxin; Validated; Region: PRK07308 171101003572 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 171101003573 DHH family; Region: DHH; pfam01368 171101003574 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 171101003575 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 171101003576 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 171101003577 glutamate dehydrogenase; Provisional; Region: PRK09414 171101003578 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 171101003579 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 171101003580 NAD(P) binding site [chemical binding]; other site 171101003581 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 171101003582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101003583 Walker A/P-loop; other site 171101003584 ATP binding site [chemical binding]; other site 171101003585 Q-loop/lid; other site 171101003586 ABC transporter signature motif; other site 171101003587 Walker B; other site 171101003588 D-loop; other site 171101003589 H-loop/switch region; other site 171101003590 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101003591 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 171101003592 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 171101003593 active site 171101003594 catalytic motif [active] 171101003595 Zn binding site [ion binding]; other site 171101003596 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 171101003597 tetramer interfaces [polypeptide binding]; other site 171101003598 binuclear metal-binding site [ion binding]; other site 171101003599 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 171101003600 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 171101003601 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 171101003602 Walker A/P-loop; other site 171101003603 ATP binding site [chemical binding]; other site 171101003604 Q-loop/lid; other site 171101003605 ABC transporter signature motif; other site 171101003606 Walker B; other site 171101003607 D-loop; other site 171101003608 H-loop/switch region; other site 171101003609 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 171101003610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 171101003611 Walker A/P-loop; other site 171101003612 ATP binding site [chemical binding]; other site 171101003613 Q-loop/lid; other site 171101003614 ABC transporter signature motif; other site 171101003615 Walker B; other site 171101003616 D-loop; other site 171101003617 H-loop/switch region; other site 171101003618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 171101003619 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 171101003620 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 171101003621 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 171101003622 dimer interface [polypeptide binding]; other site 171101003623 conserved gate region; other site 171101003624 putative PBP binding loops; other site 171101003625 ABC-ATPase subunit interface; other site 171101003626 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 171101003627 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 171101003628 dimer interface [polypeptide binding]; other site 171101003629 conserved gate region; other site 171101003630 putative PBP binding loops; other site 171101003631 ABC-ATPase subunit interface; other site 171101003632 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 171101003633 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 171101003634 cyclically-permuted mutarotase family protein; Region: mutarot_permut; TIGR03548 171101003635 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 171101003636 putative active site cavity [active] 171101003637 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101003638 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 171101003639 Walker A/P-loop; other site 171101003640 ATP binding site [chemical binding]; other site 171101003641 Q-loop/lid; other site 171101003642 ABC transporter signature motif; other site 171101003643 Walker B; other site 171101003644 D-loop; other site 171101003645 H-loop/switch region; other site 171101003646 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003647 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101003648 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 171101003649 Walker A/P-loop; other site 171101003650 ATP binding site [chemical binding]; other site 171101003651 Q-loop/lid; other site 171101003652 ABC transporter signature motif; other site 171101003653 Walker B; other site 171101003654 D-loop; other site 171101003655 H-loop/switch region; other site 171101003656 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 171101003657 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 171101003658 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 171101003659 active site 171101003660 ATP binding site [chemical binding]; other site 171101003661 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 171101003662 active site 171101003663 zinc binding site [ion binding]; other site 171101003664 CAAX protease self-immunity; Region: Abi; pfam02517 171101003665 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 171101003666 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 171101003667 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 171101003668 core dimer interface [polypeptide binding]; other site 171101003669 peripheral 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; pfam00664 171101003683 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; 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; pfam00664 171101003693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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 [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 171101003702 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 171101003703 homoserine kinase; Provisional; Region: PRK01212 171101003704 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 171101003705 homoserine dehydrogenase; Provisional; Region: PRK06349 171101003706 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 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 adaptor protein; Provisional; Region: PRK02315 171101003710 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 171101003711 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 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 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 171101003715 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 171101003716 putative ADP-binding pocket [chemical binding]; other site 171101003717 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 171101003718 Transcriptional regulator [Transcription]; Region: LytR; COG1316 171101003719 prephenate dehydratase; Provisional; Region: PRK11898 171101003720 Prephenate dehydratase; Region: PDT; pfam00800 171101003721 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 171101003722 putative L-Phe binding site [chemical binding]; other site 171101003723 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 171101003724 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 171101003725 ADP binding site [chemical binding]; other site 171101003726 magnesium binding site [ion binding]; other site 171101003727 putative shikimate binding site; other site 171101003728 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 171101003729 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 171101003730 hinge; other site 171101003731 active site 171101003732 hypothetical protein; Provisional; Region: PRK13676 171101003733 prephenate dehydrogenase; Validated; Region: PRK06545 171101003734 prephenate dehydrogenase; Validated; Region: PRK08507 171101003735 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 171101003736 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 171101003737 Tetramer interface [polypeptide binding]; other site 171101003738 active site 171101003739 FMN-binding site [chemical binding]; other site 171101003740 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 171101003741 active site 171101003742 dimer interface [polypeptide binding]; other site 171101003743 metal binding site [ion binding]; metal-binding site 171101003744 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 171101003745 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 171101003746 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 171101003747 shikimate binding site; other site 171101003748 NAD(P) binding site [chemical binding]; other site 171101003749 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 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 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 171101003755 putative RNA binding site [nucleotide binding]; other site 171101003756 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 171101003757 S-adenosylmethionine binding site [chemical binding]; other site 171101003758 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 171101003759 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 171101003760 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 171101003761 Walker A/P-loop; other site 171101003762 ATP binding site [chemical binding]; other site 171101003763 Q-loop/lid; other site 171101003764 ABC transporter signature motif; other site 171101003765 Walker B; other site 171101003766 D-loop; other site 171101003767 H-loop/switch region; other site 171101003768 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 171101003769 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 171101003770 active site 171101003771 Na/Ca binding site [ion binding]; other site 171101003772 catalytic site [active] 171101003773 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 171101003774 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 171101003775 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 171101003776 motif 1; other site 171101003777 active site 171101003778 motif 2; other site 171101003779 motif 3; other site 171101003780 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 171101003781 DHHA1 domain; Region: DHHA1; pfam02272 171101003782 Uncharacterized conserved protein [Function unknown]; Region: COG4894 171101003783 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 171101003784 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 171101003785 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 171101003786 dimer interface [polypeptide binding]; other site 171101003787 conserved gate region; other site 171101003788 putative PBP binding loops; other site 171101003789 ABC-ATPase subunit interface; other site 171101003790 sulfate transport protein; Provisional; Region: cysT; CHL00187 171101003791 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 171101003792 dimer interface [polypeptide binding]; other site 171101003793 conserved gate region; other site 171101003794 putative PBP binding loops; other site 171101003795 ABC-ATPase subunit interface; other site 171101003796 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 171101003797 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101003798 Walker A/P-loop; other site 171101003799 ATP binding site [chemical binding]; other site 171101003800 Q-loop/lid; other site 171101003801 ABC transporter signature motif; other site 171101003802 Walker B; other site 171101003803 D-loop; other site 171101003804 H-loop/switch region; other site 171101003805 TOBE domain; Region: TOBE_2; pfam08402 171101003806 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 171101003807 FAD binding domain; Region: FAD_binding_4; pfam01565 171101003808 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 171101003809 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 171101003810 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 171101003811 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 171101003812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101003813 DNA-binding site [nucleotide binding]; DNA binding site 171101003814 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 171101003815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101003816 homodimer interface [polypeptide binding]; other site 171101003817 catalytic residue [active] 171101003818 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 171101003819 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101003820 substrate binding pocket [chemical binding]; other site 171101003821 membrane-bound complex binding site; other site 171101003822 hinge residues; other site 171101003823 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 171101003824 PhoU domain; Region: PhoU; pfam01895 171101003825 PhoU domain; Region: PhoU; pfam01895 171101003826 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 171101003827 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 171101003828 Walker A/P-loop; other site 171101003829 ATP binding site [chemical binding]; other site 171101003830 Q-loop/lid; other site 171101003831 ABC transporter signature motif; other site 171101003832 Walker B; other site 171101003833 D-loop; other site 171101003834 H-loop/switch region; other site 171101003835 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 171101003836 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 171101003837 Walker A/P-loop; other site 171101003838 ATP binding site [chemical binding]; other site 171101003839 Q-loop/lid; other site 171101003840 ABC transporter signature motif; other site 171101003841 Walker B; other site 171101003842 D-loop; other site 171101003843 H-loop/switch region; other site 171101003844 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 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 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 171101003851 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 171101003852 dimer interface [polypeptide binding]; other site 171101003853 conserved gate region; other site 171101003854 putative PBP binding loops; other site 171101003855 ABC-ATPase subunit interface; other site 171101003856 phosphate binding protein; Region: ptsS_2; TIGR02136 171101003857 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 171101003858 active site 171101003859 hypothetical protein; Provisional; Region: PRK04387 171101003860 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 171101003861 putative catalytic residues [active] 171101003862 thiol/disulfide switch; other site 171101003863 Predicted membrane protein [Function unknown]; Region: COG4478 171101003864 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 171101003865 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 171101003866 active site 171101003867 motif I; other site 171101003868 motif II; other site 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 domain; Region: HemN_C; pfam06969 171101003878 YtxH-like protein; Region: YtxH; pfam12732 171101003879 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 171101003880 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 171101003881 HPr kinase/phosphorylase; Provisional; Region: PRK05428 171101003882 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 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 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 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 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 171101003895 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 171101003896 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 171101003897 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 171101003898 homodimer interface [polypeptide binding]; other site 171101003899 NAD binding pocket [chemical binding]; other site 171101003900 ATP binding pocket [chemical binding]; other site 171101003901 Mg binding site [ion binding]; other site 171101003902 active-site loop [active] 171101003903 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 171101003904 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 171101003905 active site 171101003906 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 171101003907 non-specific DNA binding site [nucleotide binding]; other site 171101003908 salt bridge; other site 171101003909 sequence-specific DNA binding site [nucleotide binding]; other site 171101003910 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 171101003911 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 171101003912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101003913 Q-loop/lid; other site 171101003914 ABC transporter signature motif; other site 171101003915 Walker B; other site 171101003916 D-loop; other site 171101003917 H-loop/switch region; other site 171101003918 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 171101003919 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 171101003920 putative protease; Provisional; Region: PRK15452 171101003921 Helix-turn-helix domain; Region: HTH_18; pfam12833 171101003922 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003923 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101003924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101003925 Walker A/P-loop; other site 171101003926 ATP binding site [chemical binding]; other site 171101003927 Q-loop/lid; other site 171101003928 ABC transporter signature motif; other site 171101003929 Walker B; other site 171101003930 D-loop; other site 171101003931 H-loop/switch region; other site 171101003932 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101003933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101003934 Walker A/P-loop; other site 171101003935 ATP binding site [chemical binding]; other site 171101003936 Q-loop/lid; other site 171101003937 ABC transporter signature motif; other site 171101003938 Walker B; other site 171101003939 D-loop; other site 171101003940 H-loop/switch region; other site 171101003941 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 171101003942 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 171101003943 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 171101003944 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 171101003945 Walker A/P-loop; other site 171101003946 ATP binding site [chemical binding]; other site 171101003947 Q-loop/lid; other site 171101003948 ABC transporter signature motif; other site 171101003949 Walker B; other site 171101003950 D-loop; other site 171101003951 H-loop/switch region; other site 171101003952 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101003953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101003954 Walker A/P-loop; other site 171101003955 ATP binding site [chemical binding]; other site 171101003956 Q-loop/lid; other site 171101003957 ABC transporter signature motif; other site 171101003958 Walker B; other site 171101003959 D-loop; other site 171101003960 H-loop/switch region; other site 171101003961 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 171101003962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 171101003963 zinc-finger binding domain of transposase IS66; Region: zf-IS66; pfam13005 171101003964 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 171101003965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 171101003966 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 171101003967 GMP synthase; Reviewed; Region: guaA; PRK00074 171101003968 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 171101003969 AMP/PPi binding site [chemical binding]; other site 171101003970 candidate oxyanion hole; other site 171101003971 catalytic triad [active] 171101003972 potential glutamine specificity residues [chemical binding]; other site 171101003973 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 171101003974 ATP Binding subdomain [chemical binding]; other site 171101003975 Ligand Binding sites [chemical binding]; other site 171101003976 Dimerization subdomain; other site 171101003977 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 171101003978 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101003979 DNA-binding site [nucleotide binding]; DNA binding site 171101003980 UTRA domain; Region: UTRA; pfam07702 171101003981 EamA-like transporter family; Region: EamA; pfam00892 171101003982 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 171101003983 EamA-like transporter family; Region: EamA; pfam00892 171101003984 Beta-lactamase; Region: Beta-lactamase; pfam00144 171101003985 CppA N-terminal; Region: CppA_N; pfam14506 171101003986 CppA C-terminal; Region: CppA_C; pfam14507 171101003987 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 171101003988 active site 171101003989 catalytic triad [active] 171101003990 oxyanion hole [active] 171101003991 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 171101003992 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 171101003993 active site 171101003994 motif I; other site 171101003995 motif II; other site 171101003996 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101003997 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 171101003998 active site 171101003999 catalytic residues [active] 171101004000 metal binding site [ion binding]; metal-binding site 171101004001 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 171101004002 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 171101004003 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 171101004004 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 171101004005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 171101004006 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 171101004007 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 171101004008 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101004009 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 171101004010 Walker A/P-loop; other site 171101004011 ATP binding site [chemical binding]; other site 171101004012 Q-loop/lid; other site 171101004013 ABC transporter signature motif; other site 171101004014 Walker B; other site 171101004015 D-loop; other site 171101004016 H-loop/switch region; other site 171101004017 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101004018 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 171101004019 dimer interface [polypeptide binding]; other site 171101004020 conserved gate region; other site 171101004021 putative PBP binding loops; other site 171101004022 ABC-ATPase subunit interface; other site 171101004023 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 171101004024 putative ArsC-like catalytic residues; other site 171101004025 putative TRX-like catalytic residues [active] 171101004026 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 171101004027 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 171101004028 DNA binding site [nucleotide binding] 171101004029 active site 171101004030 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101004031 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101004032 Coenzyme A binding pocket [chemical binding]; other site 171101004033 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 171101004034 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 171101004035 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 171101004036 predicted active site [active] 171101004037 catalytic triad [active] 171101004038 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 171101004039 active site 171101004040 multimer interface [polypeptide binding]; other site 171101004041 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 171101004042 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 171101004043 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 171101004044 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 171101004045 Predicted flavoprotein [General function prediction only]; Region: COG0431 171101004046 Predicted flavoprotein [General function prediction only]; Region: COG0431 171101004047 PAS domain; Region: PAS_10; pfam13596 171101004048 hypothetical protein; Provisional; Region: PRK02539 171101004049 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 171101004050 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 171101004051 DALR anticodon binding domain; Region: DALR_1; pfam05746 171101004052 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 171101004053 dimer interface [polypeptide binding]; other site 171101004054 motif 1; other site 171101004055 active site 171101004056 motif 2; other site 171101004057 motif 3; other site 171101004058 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 171101004059 active site 171101004060 catalytic tetrad [active] 171101004061 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 171101004062 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 171101004063 NodB motif; other site 171101004064 active site 171101004065 catalytic site [active] 171101004066 Zn binding site [ion binding]; other site 171101004067 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 171101004068 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 171101004069 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 171101004070 DEAD-like helicases superfamily; Region: DEXDc; smart00487 171101004071 ATP binding site [chemical binding]; other site 171101004072 putative Mg++ binding site [ion binding]; other site 171101004073 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 171101004074 nucleotide binding region [chemical binding]; other site 171101004075 ATP-binding site [chemical binding]; other site 171101004076 elongation factor Tu; Reviewed; Region: PRK00049 171101004077 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 171101004078 G1 box; other site 171101004079 GEF interaction site [polypeptide binding]; other site 171101004080 GTP/Mg2+ binding site [chemical binding]; other site 171101004081 Switch I region; other site 171101004082 G2 box; other site 171101004083 G3 box; other site 171101004084 Switch II region; other site 171101004085 G4 box; other site 171101004086 G5 box; other site 171101004087 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 171101004088 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 171101004089 Antibiotic Binding Site [chemical binding]; other site 171101004090 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 171101004091 amphipathic channel; other site 171101004092 Asn-Pro-Ala signature motifs; other site 171101004093 MucBP domain; Region: MucBP; pfam06458 171101004094 WTX protein; Region: WTX; pfam09422 171101004095 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 171101004096 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 171101004097 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 171101004098 active site 171101004099 substrate binding site [chemical binding]; other site 171101004100 metal binding site [ion binding]; metal-binding site 171101004101 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 171101004102 catalytic residues [active] 171101004103 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 171101004104 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 171101004105 substrate binding pocket [chemical binding]; other site 171101004106 membrane-bound complex binding site; other site 171101004107 hinge residues; other site 171101004108 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101004109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101004110 Walker A/P-loop; other site 171101004111 ATP binding site [chemical binding]; other site 171101004112 Q-loop/lid; other site 171101004113 ABC transporter signature motif; other site 171101004114 Walker B; other site 171101004115 D-loop; other site 171101004116 H-loop/switch region; other site 171101004117 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 171101004118 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 171101004119 dimer interface [polypeptide binding]; other site 171101004120 conserved gate region; other site 171101004121 putative PBP binding loops; other site 171101004122 ABC-ATPase subunit interface; other site 171101004123 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 171101004124 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 171101004125 TPR motif; other site 171101004126 binding surface 171101004127 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 171101004128 binding surface 171101004129 TPR motif; other site 171101004130 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 171101004131 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 171101004132 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 171101004133 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 171101004134 gamma subunit interface [polypeptide binding]; other site 171101004135 epsilon subunit interface [polypeptide binding]; other site 171101004136 LBP interface [polypeptide binding]; other site 171101004137 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 171101004138 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 171101004139 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 171101004140 alpha subunit interaction interface [polypeptide binding]; other site 171101004141 Walker A motif; other site 171101004142 ATP binding site [chemical binding]; other site 171101004143 Walker B motif; other site 171101004144 inhibitor binding site; inhibition site 171101004145 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 171101004146 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 171101004147 core domain interface [polypeptide binding]; other site 171101004148 delta subunit interface [polypeptide binding]; other site 171101004149 epsilon subunit interface [polypeptide binding]; other site 171101004150 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 171101004151 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 171101004152 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 171101004153 beta subunit interaction interface [polypeptide binding]; other site 171101004154 Walker A motif; other site 171101004155 ATP binding site [chemical binding]; other site 171101004156 Walker B motif; other site 171101004157 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 171101004158 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 171101004159 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 171101004160 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 171101004161 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 171101004162 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 171101004163 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 171101004164 Helix-turn-helix domain; Region: HTH_38; pfam13936 171101004165 Integrase core domain; Region: rve; pfam00665 171101004166 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101004167 Coenzyme A binding pocket [chemical binding]; other site 171101004168 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 171101004169 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 171101004170 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 171101004171 Mid-1-related chloride channel (MCLC); Region: MCLC; pfam05934 171101004172 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 171101004173 dimerization interface [polypeptide binding]; other site 171101004174 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 171101004175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101004176 Coenzyme A binding pocket [chemical binding]; other site 171101004177 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 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; pfam08245 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 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 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 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 171101004196 homodimer interface [polypeptide binding]; other site 171101004197 substrate-cofactor binding pocket; other site 171101004198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101004199 catalytic residue [active] 171101004200 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 171101004201 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 171101004202 peptide binding site [polypeptide binding]; other site 171101004203 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 171101004204 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 171101004205 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 171101004206 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 171101004207 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 171101004208 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101004209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 171101004210 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 171101004211 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 171101004212 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 171101004213 DHH family; Region: DHH; pfam01368 171101004214 DHHA2 domain; Region: DHHA2; pfam02833 171101004215 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 171101004216 GIY-YIG motif/motif A; other site 171101004217 putative active site [active] 171101004218 putative metal binding site [ion binding]; other site 171101004219 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 171101004220 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 171101004221 S-adenosylmethionine binding site [chemical binding]; other site 171101004222 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 171101004223 hypothetical protein; Provisional; Region: PRK07252 171101004224 RNA binding site [nucleotide binding]; other site 171101004225 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 171101004226 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 171101004227 active site 171101004228 motif I; other site 171101004229 motif II; other site 171101004230 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101004231 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 171101004232 active site 171101004233 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 171101004234 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 171101004235 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 171101004236 dimer interface [polypeptide binding]; other site 171101004237 ssDNA binding site [nucleotide binding]; other site 171101004238 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101004239 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 171101004240 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 171101004241 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 171101004242 putative dimer interface [polypeptide binding]; other site 171101004243 putative anticodon binding site; other site 171101004244 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 171101004245 homodimer interface [polypeptide binding]; other site 171101004246 motif 1; other site 171101004247 motif 2; other site 171101004248 active site 171101004249 motif 3; other site 171101004250 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 171101004251 aspartate aminotransferase; Provisional; Region: PRK05764 171101004252 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 171101004253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101004254 homodimer interface [polypeptide binding]; other site 171101004255 catalytic residue [active] 171101004256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 171101004257 Predicted flavoprotein [General function prediction only]; Region: COG0431 171101004258 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101004259 G5 domain; Region: G5; pfam07501 171101004260 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004261 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004262 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004263 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004264 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004265 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004266 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004267 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004268 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004269 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004270 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004271 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004272 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 171101004273 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004274 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004275 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004276 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004277 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004278 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004279 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004280 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004281 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004282 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 171101004283 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 171101004284 Mga helix-turn-helix domain; Region: Mga; pfam05043 171101004285 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 171101004286 hypothetical protein; Validated; Region: PRK02101 171101004287 Protein of unknown function (DUF3953); Region: DUF3953; pfam13129 171101004288 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 171101004289 active site 171101004290 catalytic residues [active] 171101004291 metal binding site [ion binding]; metal-binding site 171101004292 putative S-transferase; Provisional; Region: PRK11752 171101004293 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 171101004294 C-terminal domain interface [polypeptide binding]; other site 171101004295 GSH binding site (G-site) [chemical binding]; other site 171101004296 dimer interface [polypeptide binding]; other site 171101004297 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 171101004298 N-terminal domain interface [polypeptide binding]; other site 171101004299 dimer interface [polypeptide binding]; other site 171101004300 substrate binding pocket (H-site) [chemical binding]; other site 171101004301 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 171101004302 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 171101004303 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101004304 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 171101004305 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 171101004306 motif II; other site 171101004307 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 171101004308 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 171101004309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 171101004310 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 171101004311 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101004312 ABC transporter; Region: ABC_tran_2; pfam12848 171101004313 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101004314 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 171101004315 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 171101004316 active site 171101004317 NTP binding site [chemical binding]; other site 171101004318 metal binding triad [ion binding]; metal-binding site 171101004319 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 171101004320 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 171101004321 dihydrodipicolinate reductase; Provisional; Region: PRK00048 171101004322 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 171101004323 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 171101004324 EDD domain protein, DegV family; Region: DegV; TIGR00762 171101004325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 171101004326 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 171101004327 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 171101004328 active site 171101004329 substrate binding site [chemical binding]; other site 171101004330 metal binding site [ion binding]; metal-binding site 171101004331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 171101004332 YbbR-like protein; Region: YbbR; pfam07949 171101004333 Uncharacterized conserved protein [Function unknown]; Region: COG1624 171101004334 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 171101004335 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 171101004336 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 171101004337 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 171101004338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 171101004339 WhiA N-terminal LAGLIDADG-like domain; Region: WhiA_N; pfam10298 171101004340 WhiA LAGLIDADG-like domain; Region: LAGLIDADG_WhiA; pfam14527 171101004341 WhiA C-terminal HTH domain; Region: HTH_WhiA; pfam02650 171101004342 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 171101004343 phosphate binding site [ion binding]; other site 171101004344 dimer interface [polypeptide binding]; other site 171101004345 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 171101004346 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 171101004347 homotrimer interaction site [polypeptide binding]; other site 171101004348 putative active site [active] 171101004349 Predicted GTPase [General function prediction only]; Region: COG0218 171101004350 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 171101004351 G1 box; other site 171101004352 GTP/Mg2+ binding site [chemical binding]; other site 171101004353 Switch I region; other site 171101004354 G2 box; other site 171101004355 G3 box; other site 171101004356 Switch II region; other site 171101004357 G4 box; other site 171101004358 G5 box; other site 171101004359 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 171101004360 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 171101004361 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 171101004362 Walker A motif; other site 171101004363 ATP binding site [chemical binding]; other site 171101004364 Walker B motif; other site 171101004365 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 171101004366 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 171101004367 folate binding site [chemical binding]; other site 171101004368 NADP+ binding site [chemical binding]; other site 171101004369 Ferritin-like domain; Region: Ferritin; pfam00210 171101004370 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 171101004371 dimerization interface [polypeptide binding]; other site 171101004372 DPS ferroxidase diiron center [ion binding]; other site 171101004373 ion pore; other site 171101004374 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101004375 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 171101004376 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 171101004377 active site 171101004378 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 171101004379 substrate binding site [chemical binding]; other site 171101004380 dimer interface [polypeptide binding]; other site 171101004381 catalytic triad [active] 171101004382 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 171101004383 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 171101004384 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 171101004385 proposed active site lysine [active] 171101004386 conserved cys residue [active] 171101004387 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101004388 active site 171101004389 Methyltransferase domain; Region: Methyltransf_31; pfam13847 171101004390 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 171101004391 S-adenosylmethionine binding site [chemical binding]; other site 171101004392 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 171101004393 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 171101004394 Walker A/P-loop; other site 171101004395 ATP binding site [chemical binding]; other site 171101004396 Q-loop/lid; other site 171101004397 ABC transporter signature motif; other site 171101004398 Walker B; other site 171101004399 D-loop; other site 171101004400 H-loop/switch region; other site 171101004401 TOBE domain; Region: TOBE_2; pfam08402 171101004402 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 171101004403 catalytic triad [active] 171101004404 conserved cis-peptide bond; other site 171101004405 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 171101004406 CodY GAF-like domain; Region: CodY; pfam06018 171101004407 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 171101004408 putative DNA binding site [nucleotide binding]; other site 171101004409 putative Zn2+ binding site [ion binding]; other site 171101004410 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 171101004411 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 171101004412 ATP binding site [chemical binding]; other site 171101004413 Mg++ binding site [ion binding]; other site 171101004414 motif III; other site 171101004415 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 171101004416 nucleotide binding region [chemical binding]; other site 171101004417 ATP-binding site [chemical binding]; other site 171101004418 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 171101004419 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 171101004420 putative substrate translocation pore; other site 171101004421 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 171101004422 Squalene epoxidase; Region: SE; cl17314 171101004423 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 171101004424 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 171101004425 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 171101004426 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 171101004427 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 171101004428 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 171101004429 catalytic triad [active] 171101004430 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 171101004431 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 171101004432 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 171101004433 active site 171101004434 Integrase core domain; Region: rve; pfam00665 171101004435 Integrase core domain; Region: rve_2; pfam13333 171101004436 HTH-like domain; Region: HTH_21; pfam13276 171101004437 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 171101004438 Helix-turn-helix domain; Region: HTH_28; pfam13518 171101004439 Predicted membrane protein [Function unknown]; Region: COG4720 171101004440 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 171101004441 dimer interface [polypeptide binding]; other site 171101004442 substrate binding site [chemical binding]; other site 171101004443 ATP binding site [chemical binding]; other site 171101004444 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 171101004445 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 171101004446 dimerization interface 3.5A [polypeptide binding]; other site 171101004447 active site 171101004448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 171101004449 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 171101004450 putative substrate translocation pore; other site 171101004451 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 171101004452 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 171101004453 PhnA protein; Region: PhnA; pfam03831 171101004454 cytidylate kinase; Provisional; Region: cmk; PRK00023 171101004455 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 171101004456 AAA domain; Region: AAA_17; cl19128 171101004457 CMP-binding site; other site 171101004458 The sites determining sugar specificity; other site 171101004459 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 171101004460 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 171101004461 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 171101004462 Ligand binding site; other site 171101004463 Putative Catalytic site; other site 171101004464 DXD motif; other site 171101004465 UDP-glucose 4-epimerase; Region: PLN02240 171101004466 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 171101004467 NAD binding site [chemical binding]; other site 171101004468 homodimer interface [polypeptide binding]; other site 171101004469 active site 171101004470 substrate binding site [chemical binding]; other site 171101004471 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 171101004472 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 171101004473 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 171101004474 Uncharacterized conserved protein [Function unknown]; Region: COG0327 171101004475 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 171101004476 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 171101004477 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101004478 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 171101004479 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 171101004480 motif II; other site 171101004481 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 171101004482 putative acyl-acceptor binding pocket; other site 171101004483 Cadmium resistance transporter; Region: Cad; pfam03596 171101004484 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 171101004485 16S/18S rRNA binding site [nucleotide binding]; other site 171101004486 S13e-L30e interaction site [polypeptide binding]; other site 171101004487 25S rRNA binding site [nucleotide binding]; other site 171101004488 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 171101004489 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 171101004490 NAD binding site [chemical binding]; other site 171101004491 substrate binding site [chemical binding]; other site 171101004492 putative active site [active] 171101004493 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 171101004494 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 171101004495 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 171101004496 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 171101004497 active site 171101004498 dimer interface [polypeptide binding]; other site 171101004499 motif 1; other site 171101004500 motif 2; other site 171101004501 motif 3; other site 171101004502 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 171101004503 anticodon binding site; other site 171101004504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101004505 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 171101004506 ATP binding site [chemical binding]; other site 171101004507 Mg2+ binding site [ion binding]; other site 171101004508 G-X-G motif; other site 171101004509 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101004510 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 171101004511 active site 171101004512 phosphorylation site [posttranslational modification] 171101004513 intermolecular recognition site; other site 171101004514 dimerization interface [polypeptide binding]; other site 171101004515 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 171101004516 DNA binding site [nucleotide binding] 171101004517 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 171101004518 Predicted transcriptional regulator [Transcription]; Region: COG1959 171101004519 Rrf2 family protein; Region: rrf2_super; TIGR00738 171101004520 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 171101004521 active site 171101004522 metal binding site [ion binding]; metal-binding site 171101004523 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 171101004524 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 171101004525 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 171101004526 FeoA domain; Region: FeoA; pfam04023 171101004527 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 171101004528 putative active site [active] 171101004529 dimerization interface [polypeptide binding]; other site 171101004530 putative tRNAtyr binding site [nucleotide binding]; other site 171101004531 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 171101004532 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 171101004533 Zn2+ binding site [ion binding]; other site 171101004534 Mg2+ binding site [ion binding]; other site 171101004535 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 171101004536 synthetase active site [active] 171101004537 NTP binding site [chemical binding]; other site 171101004538 metal binding site [ion binding]; metal-binding site 171101004539 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 171101004540 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 171101004541 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 171101004542 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 171101004543 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 171101004544 active site 171101004545 Zn binding site [ion binding]; other site 171101004546 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 171101004547 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 171101004548 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 171101004549 ABC-ATPase subunit interface; other site 171101004550 dimer interface [polypeptide binding]; other site 171101004551 putative PBP binding regions; other site 171101004552 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 171101004553 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 171101004554 metal binding site [ion binding]; metal-binding site 171101004555 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 171101004556 dimer interface [polypeptide binding]; other site 171101004557 catalytic triad [active] 171101004558 peroxidatic and resolving cysteines [active] 171101004559 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 171101004560 FtsX-like permease family; Region: FtsX; pfam02687 171101004561 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 171101004562 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 171101004563 FtsX-like permease family; Region: FtsX; pfam02687 171101004564 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101004565 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 171101004566 Walker A/P-loop; other site 171101004567 ATP binding site [chemical binding]; other site 171101004568 Q-loop/lid; other site 171101004569 ABC transporter signature motif; other site 171101004570 Walker B; other site 171101004571 D-loop; other site 171101004572 H-loop/switch region; other site 171101004573 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hyd_65N_2; pfam14498 171101004574 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 171101004575 catalytic core [active] 171101004576 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 171101004577 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 171101004578 active site 171101004579 HIGH motif; other site 171101004580 KMSKS motif; other site 171101004581 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 171101004582 tRNA binding surface [nucleotide binding]; other site 171101004583 anticodon binding site; other site 171101004584 DivIVA protein; Region: DivIVA; pfam05103 171101004585 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 171101004586 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 171101004587 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 171101004588 RNA binding surface [nucleotide binding]; other site 171101004589 YGGT family; Region: YGGT; pfam02325 171101004590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 171101004591 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 171101004592 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101004593 catalytic residue [active] 171101004594 cell division protein FtsZ; Validated; Region: PRK09330 171101004595 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 171101004596 nucleotide binding site [chemical binding]; other site 171101004597 SulA interaction site; other site 171101004598 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 171101004599 Cell division protein FtsA; Region: FtsA; smart00842 171101004600 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 171101004601 nucleotide binding site [chemical binding]; other site 171101004602 Cell division protein FtsA; Region: FtsA; pfam14450 171101004603 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 171101004604 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 171101004605 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 171101004606 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 171101004607 nudix motif; other site 171101004608 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 171101004609 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 171101004610 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 171101004611 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 171101004612 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 171101004613 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 171101004614 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 171101004615 recombination protein RecR; Reviewed; Region: recR; PRK00076 171101004616 RecR protein; Region: RecR; pfam02132 171101004617 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 171101004618 putative active site [active] 171101004619 putative metal-binding site [ion binding]; other site 171101004620 tetramer interface [polypeptide binding]; other site 171101004621 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 171101004622 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 171101004623 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 171101004624 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 171101004625 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 171101004626 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 171101004627 putative active site [active] 171101004628 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101004629 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 171101004630 nucleotide binding site [chemical binding]; other site 171101004631 Protein of unknown function, DUF624; Region: DUF624; pfam04854 171101004632 Domain of unknown function (DUF386); Region: DUF386; pfam04074 171101004633 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004634 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 171101004635 dimer interface [polypeptide binding]; other site 171101004636 conserved gate region; other site 171101004637 putative PBP binding loops; other site 171101004638 ABC-ATPase subunit interface; other site 171101004639 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004640 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 171101004641 dimer interface [polypeptide binding]; other site 171101004642 conserved gate region; other site 171101004643 putative PBP binding loops; other site 171101004644 ABC-ATPase subunit interface; other site 171101004645 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101004646 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 171101004647 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 171101004648 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 171101004649 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 171101004650 active site turn [active] 171101004651 phosphorylation site [posttranslational modification] 171101004652 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 171101004653 putative active site cavity [active] 171101004654 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 171101004655 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 171101004656 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 171101004657 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 171101004658 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 171101004659 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 171101004660 catalytic site [active] 171101004661 Asp-box motif; other site 171101004662 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004663 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 171101004664 dimer interface [polypeptide binding]; other site 171101004665 conserved gate region; other site 171101004666 putative PBP binding loops; other site 171101004667 ABC-ATPase subunit interface; other site 171101004668 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004669 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 171101004670 dimer interface [polypeptide binding]; other site 171101004671 conserved gate region; other site 171101004672 putative PBP binding loops; other site 171101004673 ABC-ATPase subunit interface; other site 171101004674 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101004675 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 171101004676 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 171101004677 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101004678 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 171101004679 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 171101004680 catalytic site [active] 171101004681 Asp-box motif; other site 171101004682 Procyclic acidic repetitive protein (PARP); Region: Trypan_PARP; pfam05887 171101004683 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 171101004684 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 171101004685 Y-family of DNA polymerases; Region: PolY; cl12025 171101004686 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 171101004687 ssDNA binding site; other site 171101004688 generic binding surface II; other site 171101004689 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 171101004690 ATP binding site [chemical binding]; other site 171101004691 putative Mg++ binding site [ion binding]; other site 171101004692 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 171101004693 nucleotide binding region [chemical binding]; other site 171101004694 ATP-binding site [chemical binding]; other site 171101004695 alanine racemase; Reviewed; Region: alr; PRK00053 171101004696 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 171101004697 active site 171101004698 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101004699 dimer interface [polypeptide binding]; other site 171101004700 substrate binding site [chemical binding]; other site 171101004701 catalytic residues [active] 171101004702 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 171101004703 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 171101004704 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; cl17260 171101004705 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 171101004706 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 171101004707 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 171101004708 nucleotide binding region [chemical binding]; other site 171101004709 ATP-binding site [chemical binding]; other site 171101004710 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 171101004711 SEC-C motif; Region: SEC-C; pfam02810 171101004712 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 171101004713 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 171101004714 Walker A/P-loop; other site 171101004715 ATP binding site [chemical binding]; other site 171101004716 Q-loop/lid; other site 171101004717 ABC transporter signature motif; other site 171101004718 Walker B; other site 171101004719 D-loop; other site 171101004720 H-loop/switch region; other site 171101004721 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101004722 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 171101004723 non-specific DNA binding site [nucleotide binding]; other site 171101004724 salt bridge; other site 171101004725 sequence-specific DNA binding site [nucleotide binding]; other site 171101004726 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101004727 GTP-binding protein Der; Reviewed; Region: PRK00093 171101004728 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 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 Switch II region; other site 171101004734 G3 box; other site 171101004735 G4 box; other site 171101004736 G5 box; other site 171101004737 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 171101004738 G1 box; other site 171101004739 GTP/Mg2+ binding site [chemical binding]; other site 171101004740 Switch I region; other site 171101004741 G2 box; other site 171101004742 G3 box; other site 171101004743 Switch II region; other site 171101004744 G4 box; other site 171101004745 G5 box; other site 171101004746 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 171101004747 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 171101004748 dimer interface [polypeptide binding]; other site 171101004749 FMN binding site [chemical binding]; other site 171101004750 NADPH bind site [chemical binding]; other site 171101004751 primosomal protein DnaI; Reviewed; Region: PRK08939 171101004752 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 171101004753 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 171101004754 Walker A motif; other site 171101004755 ATP binding site [chemical binding]; other site 171101004756 Walker B motif; other site 171101004757 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 171101004758 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 171101004759 C-terminal zinc ribbon domain of RNA polymerase intrinsic transcript cleavage subunit; Region: Zn-ribbon; cl02609 171101004760 Zn binding site [ion binding]; other site 171101004761 ATP cone domain; Region: ATP-cone; pfam03477 171101004762 Predicted transcriptional regulators [Transcription]; Region: COG1725 171101004763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101004764 DNA-binding site [nucleotide binding]; DNA binding site 171101004765 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 171101004766 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 171101004767 Walker A/P-loop; other site 171101004768 ATP binding site [chemical binding]; other site 171101004769 Q-loop/lid; other site 171101004770 ABC transporter signature motif; other site 171101004771 Walker B; other site 171101004772 D-loop; other site 171101004773 H-loop/switch region; other site 171101004774 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 171101004775 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 171101004776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101004777 Walker A/P-loop; other site 171101004778 ATP binding site [chemical binding]; other site 171101004779 Q-loop/lid; other site 171101004780 ABC transporter signature motif; other site 171101004781 Walker B; other site 171101004782 D-loop; other site 171101004783 H-loop/switch region; other site 171101004784 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 171101004785 Uncharacterized conserved protein [Function unknown]; Region: COG0398 171101004786 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101004787 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 171101004788 nucleotide binding site [chemical binding]; other site 171101004789 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 171101004790 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 171101004791 active site turn [active] 171101004792 phosphorylation site [posttranslational modification] 171101004793 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 171101004794 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 171101004795 HPr interaction site; other site 171101004796 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101004797 active site 171101004798 phosphorylation site [posttranslational modification] 171101004799 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 171101004800 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 171101004801 substrate binding [chemical binding]; other site 171101004802 active site 171101004803 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 171101004804 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101004805 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101004806 DNA binding site [nucleotide binding] 171101004807 domain linker motif; other site 171101004808 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 171101004809 dimerization interface [polypeptide binding]; other site 171101004810 ligand binding site [chemical binding]; other site 171101004811 sodium binding site [ion binding]; other site 171101004812 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 171101004813 homodimer interface [polypeptide binding]; other site 171101004814 catalytic residues [active] 171101004815 NAD binding site [chemical binding]; other site 171101004816 substrate binding pocket [chemical binding]; other site 171101004817 flexible flap; other site 171101004818 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 171101004819 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 171101004820 dimer interface [polypeptide binding]; other site 171101004821 active site 171101004822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101004823 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 171101004824 Uncharacterized conserved protein [Function unknown]; Region: COG3610 171101004825 Uncharacterized conserved protein [Function unknown]; Region: COG2966 171101004826 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 171101004827 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 171101004828 Catalytic domain of Protein Kinases; Region: PKc; cd00180 171101004829 active site 171101004830 ATP binding site [chemical binding]; other site 171101004831 substrate binding site [chemical binding]; other site 171101004832 activation loop (A-loop); other site 171101004833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 171101004834 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 171101004835 PASTA domain; Region: PASTA; smart00740 171101004836 PASTA domain; Region: PASTA; smart00740 171101004837 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 171101004838 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 171101004839 active site 171101004840 16S rRNA methyltransferase B; Provisional; Region: PRK14902 171101004841 NusB family; Region: NusB; pfam01029 171101004842 putative RNA binding site [nucleotide binding]; other site 171101004843 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 171101004844 S-adenosylmethionine binding site [chemical binding]; other site 171101004845 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 171101004846 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 171101004847 putative active site [active] 171101004848 substrate binding site [chemical binding]; other site 171101004849 putative cosubstrate binding site; other site 171101004850 catalytic site [active] 171101004851 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 171101004852 substrate binding site [chemical binding]; other site 171101004853 primosome assembly protein PriA; Validated; Region: PRK05580 171101004854 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 171101004855 ATP binding site [chemical binding]; other site 171101004856 putative Mg++ binding site [ion binding]; other site 171101004857 helicase superfamily c-terminal domain; Region: HELICc; smart00490 171101004858 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 171101004859 Guanylate kinase; Region: Guanylate_kin; pfam00625 171101004860 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 171101004861 catalytic site [active] 171101004862 G-X2-G-X-G-K; other site 171101004863 hypothetical protein; Provisional; Region: PRK00106 171101004864 Vacuolar (H+)-ATPase G subunit; Region: V-ATPase_G; cl03922 171101004865 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 171101004866 KH domain; Region: KH_1; pfam00013 171101004867 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 171101004868 Zn2+ binding site [ion binding]; other site 171101004869 Mg2+ binding site [ion binding]; other site 171101004870 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 171101004871 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 171101004872 hypothetical protein; Provisional; Region: PRK13670 171101004873 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 171101004874 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 171101004875 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 171101004876 S-adenosylmethionine binding site [chemical binding]; other site 171101004877 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 171101004878 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 171101004879 catalytic triad [active] 171101004880 conserved cis-peptide bond; other site 171101004881 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 171101004882 Zn2+ binding site [ion binding]; other site 171101004883 Mg2+ binding site [ion binding]; other site 171101004884 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 171101004885 active site 171101004886 (T/H)XGH motif; other site 171101004887 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 171101004888 GTPase YqeH; Provisional; Region: PRK13796 171101004889 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 171101004890 GTP/Mg2+ binding site [chemical binding]; other site 171101004891 G4 box; other site 171101004892 G5 box; other site 171101004893 G1 box; other site 171101004894 Switch I region; other site 171101004895 G2 box; other site 171101004896 G3 box; other site 171101004897 Switch II region; other site 171101004898 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 171101004899 active site 171101004900 motif I; other site 171101004901 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 171101004902 motif II; other site 171101004903 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 171101004904 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 171101004905 Cl binding site [ion binding]; other site 171101004906 oligomer interface [polypeptide binding]; other site 171101004907 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 171101004908 Mechanosensitive ion channel; Region: MS_channel; pfam00924 171101004909 serine/threonine transporter SstT; Provisional; Region: PRK14695 171101004910 Predicted membrane protein [Function unknown]; Region: COG4129 171101004911 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 171101004912 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 171101004913 Transcriptional regulators [Transcription]; Region: MarR; COG1846 171101004914 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 171101004915 Uncharacterized protein conserved in Streptococci; Region: SP_1775_like; cd13784 171101004916 oligomer interface [polypeptide binding]; other site 171101004917 putative ligand binding site [chemical binding]; other site 171101004918 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 171101004919 catalytic residues [active] 171101004920 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 171101004921 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 171101004922 amphipathic channel; other site 171101004923 Asn-Pro-Ala signature motifs; other site 171101004924 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 171101004925 oligoendopeptidase F; Region: pepF; TIGR00181 171101004926 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 171101004927 Zn binding site [ion binding]; other site 171101004928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 171101004929 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 171101004930 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 171101004931 S-adenosylmethionine binding site [chemical binding]; other site 171101004932 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 171101004933 nudix motif; other site 171101004934 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 171101004935 Peptidase family M50; Region: Peptidase_M50; pfam02163 171101004936 active site 171101004937 putative substrate binding region [chemical binding]; other site 171101004938 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 171101004939 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 171101004940 YcfA-like protein; Region: YcfA; pfam07927 171101004941 recombination factor protein RarA; Reviewed; Region: PRK13342 171101004942 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 171101004943 Walker A motif; other site 171101004944 ATP binding site [chemical binding]; other site 171101004945 Walker B motif; other site 171101004946 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl18944 171101004947 arginine finger; other site 171101004948 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 171101004949 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 171101004950 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 171101004951 substrate binding [chemical binding]; other site 171101004952 active site 171101004953 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 171101004954 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004955 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 171101004956 dimer interface [polypeptide binding]; other site 171101004957 conserved gate region; other site 171101004958 putative PBP binding loops; other site 171101004959 ABC-ATPase subunit interface; other site 171101004960 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101004961 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 171101004962 dimer interface [polypeptide binding]; other site 171101004963 conserved gate region; other site 171101004964 putative PBP binding loops; other site 171101004965 ABC-ATPase subunit interface; other site 171101004966 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101004967 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 171101004968 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101004969 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101004970 DNA binding site [nucleotide binding] 171101004971 domain linker motif; other site 171101004972 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 171101004973 dimerization interface [polypeptide binding]; other site 171101004974 ligand binding site [chemical binding]; other site 171101004975 sodium binding site [ion binding]; other site 171101004976 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 171101004977 Mga helix-turn-helix domain; Region: Mga; pfam05043 171101004978 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 171101004979 Small integral membrane protein [Function unknown]; Region: COG5547 171101004980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 171101004981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 171101004982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101004983 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101004984 Coenzyme A binding pocket [chemical binding]; other site 171101004985 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 171101004986 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 171101004987 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 171101004988 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101004989 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 171101004990 non-specific DNA binding site [nucleotide binding]; other site 171101004991 salt bridge; other site 171101004992 sequence-specific DNA binding site [nucleotide binding]; other site 171101004993 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 171101004994 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 171101004995 substrate binding site [chemical binding]; other site 171101004996 active site 171101004997 catalytic residues [active] 171101004998 heterodimer interface [polypeptide binding]; other site 171101004999 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 171101005000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101005001 catalytic residue [active] 171101005002 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 171101005003 active site 171101005004 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 171101005005 active site 171101005006 ribulose/triose binding site [chemical binding]; other site 171101005007 phosphate binding site [ion binding]; other site 171101005008 substrate (anthranilate) binding pocket [chemical binding]; other site 171101005009 product (indole) binding pocket [chemical binding]; other site 171101005010 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 171101005011 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 171101005012 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 171101005013 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 171101005014 Glutamine amidotransferase class-I; Region: GATase; pfam00117 171101005015 glutamine binding [chemical binding]; other site 171101005016 catalytic triad [active] 171101005017 anthranilate synthase component I; Provisional; Region: PRK13570 171101005018 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 171101005019 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 171101005020 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101005021 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101005022 DNA binding site [nucleotide binding] 171101005023 domain linker motif; other site 171101005024 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 171101005025 putative dimerization interface [polypeptide binding]; other site 171101005026 putative ligand binding site [chemical binding]; other site 171101005027 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 171101005028 MgtC family; Region: MgtC; pfam02308 171101005029 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 171101005030 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 171101005031 dimer interface [polypeptide binding]; other site 171101005032 conserved gate region; other site 171101005033 putative PBP binding loops; other site 171101005034 ABC-ATPase subunit interface; other site 171101005035 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 171101005036 dimer interface [polypeptide binding]; other site 171101005037 conserved gate region; other site 171101005038 putative PBP binding loops; other site 171101005039 ABC-ATPase subunit interface; other site 171101005040 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 171101005041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005042 Walker A/P-loop; other site 171101005043 ATP binding site [chemical binding]; other site 171101005044 Q-loop/lid; other site 171101005045 ABC transporter signature motif; other site 171101005046 Walker B; other site 171101005047 D-loop; other site 171101005048 H-loop/switch region; other site 171101005049 TOBE domain; Region: TOBE_2; pfam08402 171101005050 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 171101005051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 171101005052 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 171101005053 UDP-glucose 4-epimerase; Region: PLN02240 171101005054 NAD binding site [chemical binding]; other site 171101005055 homodimer interface [polypeptide binding]; other site 171101005056 active site 171101005057 substrate binding site [chemical binding]; other site 171101005058 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 171101005059 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 171101005060 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 171101005061 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 171101005062 PhoU domain; Region: PhoU; pfam01895 171101005063 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101005064 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 171101005065 Pectate lyase superfamily protein; Region: Pectate_lyase_3; cl19188 171101005066 Pectate lyase; Region: Pec_lyase_C; cl01593 171101005067 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 171101005068 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 171101005069 inhibitor-cofactor binding pocket; inhibition site 171101005070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101005071 catalytic residue [active] 171101005072 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 171101005073 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101005074 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101005075 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 171101005076 Walker A/P-loop; other site 171101005077 ATP binding site [chemical binding]; other site 171101005078 Q-loop/lid; other site 171101005079 ABC transporter signature motif; other site 171101005080 Walker B; other site 171101005081 D-loop; other site 171101005082 H-loop/switch region; other site 171101005083 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101005084 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101005085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005086 Walker A/P-loop; other site 171101005087 ATP binding site [chemical binding]; other site 171101005088 Q-loop/lid; other site 171101005089 ABC transporter signature motif; other site 171101005090 Walker B; other site 171101005091 D-loop; other site 171101005092 H-loop/switch region; other site 171101005093 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 171101005094 active site 171101005095 putative catalytic site [active] 171101005096 DNA binding site [nucleotide binding] 171101005097 putative phosphate binding site [ion binding]; other site 171101005098 metal binding site A [ion binding]; metal-binding site 171101005099 AP binding site [nucleotide binding]; other site 171101005100 metal binding site B [ion binding]; metal-binding site 171101005101 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 171101005102 active site 171101005103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101005104 active site 171101005105 Sulfate transporter family; Region: Sulfate_transp; cl19250 171101005106 xanthine permease; Region: pbuX; TIGR03173 171101005107 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 171101005108 Dam-replacing family; Region: DRP; pfam06044 171101005109 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 171101005110 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 171101005111 CoenzymeA binding site [chemical binding]; other site 171101005112 subunit interaction site [polypeptide binding]; other site 171101005113 PHB binding site; other site 171101005114 Galactose-1-phosphate uridyltransferase [Carbohydrate transport and metabolism]; Region: GalT; COG4468 171101005115 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 171101005116 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 171101005117 galactokinase; Provisional; Region: PRK05322 171101005118 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 171101005119 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 171101005120 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101005121 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101005122 DNA binding site [nucleotide binding] 171101005123 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 171101005124 putative dimerization interface [polypeptide binding]; other site 171101005125 putative ligand binding site [chemical binding]; other site 171101005126 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 171101005127 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 171101005128 NAD(P) binding site [chemical binding]; other site 171101005129 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 171101005130 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 171101005131 DNA binding residues [nucleotide binding] 171101005132 putative dimer interface [polypeptide binding]; other site 171101005133 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 171101005134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 171101005135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 171101005136 Utp21 specific WD40 associated putative domain; Region: Utp21; pfam04192 171101005137 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 171101005138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005139 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 171101005140 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 171101005141 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 171101005142 dimer interface [polypeptide binding]; other site 171101005143 conserved gate region; other site 171101005144 putative PBP binding loops; other site 171101005145 ABC-ATPase subunit interface; other site 171101005146 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 171101005147 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 171101005148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005149 Walker A/P-loop; other site 171101005150 ATP binding site [chemical binding]; other site 171101005151 Q-loop/lid; other site 171101005152 ABC transporter signature motif; other site 171101005153 Walker B; other site 171101005154 D-loop; other site 171101005155 H-loop/switch region; other site 171101005156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4922 171101005157 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 171101005158 Transcriptional regulators [Transcription]; Region: MarR; COG1846 171101005159 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 171101005160 putative DNA binding site [nucleotide binding]; other site 171101005161 putative Zn2+ binding site [ion binding]; other site 171101005162 Enterocin A Immunity; Region: EntA_Immun; pfam08951 171101005163 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 171101005164 oligomer interface [polypeptide binding]; other site 171101005165 active site 171101005166 metal binding site [ion binding]; metal-binding site 171101005167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 171101005168 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 171101005169 NAD(P) binding site [chemical binding]; other site 171101005170 active site 171101005171 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 171101005172 ABC-ATPase subunit interface; other site 171101005173 dimer interface [polypeptide binding]; other site 171101005174 putative PBP binding regions; other site 171101005175 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 171101005176 ABC-ATPase subunit interface; other site 171101005177 dimer interface [polypeptide binding]; other site 171101005178 putative PBP binding regions; other site 171101005179 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 171101005180 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 171101005181 Walker A/P-loop; other site 171101005182 ATP binding site [chemical binding]; other site 171101005183 Q-loop/lid; other site 171101005184 ABC transporter signature motif; other site 171101005185 Walker B; other site 171101005186 D-loop; other site 171101005187 H-loop/switch region; other site 171101005188 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 171101005189 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 171101005190 putative ligand binding residues [chemical binding]; other site 171101005191 hypothetical protein; Validated; Region: PRK00041 171101005192 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 171101005193 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 171101005194 RNA binding surface [nucleotide binding]; other site 171101005195 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 171101005196 active site 171101005197 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 171101005198 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 171101005199 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 171101005200 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 171101005201 active site 171101005202 catalytic residues [active] 171101005203 DNA binding site [nucleotide binding] 171101005204 Int/Topo IB signature motif; other site 171101005205 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 171101005206 FOG: CBS domain [General function prediction only]; Region: COG0517 171101005207 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 171101005208 active site 171101005209 metal binding site [ion binding]; metal-binding site 171101005210 homotetramer interface [polypeptide binding]; other site 171101005211 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 171101005212 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 171101005213 active site 171101005214 dimerization interface [polypeptide binding]; other site 171101005215 glutamate racemase; Provisional; Region: PRK00865 171101005216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 171101005217 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 171101005218 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 171101005219 Ca binding site [ion binding]; other site 171101005220 active site 171101005221 catalytic site [active] 171101005222 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 171101005223 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 171101005224 active site turn [active] 171101005225 phosphorylation site [posttranslational modification] 171101005226 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 171101005227 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 171101005228 HPr interaction site; other site 171101005229 glycerol kinase (GK) interaction site [polypeptide binding]; other site 171101005230 active site 171101005231 phosphorylation site [posttranslational modification] 171101005232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101005233 DNA-binding site [nucleotide binding]; DNA binding site 171101005234 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 171101005235 UTRA domain; Region: UTRA; pfam07702 171101005236 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 171101005237 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 171101005238 Walker A/P-loop; other site 171101005239 ATP binding site [chemical binding]; other site 171101005240 Q-loop/lid; other site 171101005241 ABC transporter signature motif; other site 171101005242 Walker B; other site 171101005243 D-loop; other site 171101005244 H-loop/switch region; other site 171101005245 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 171101005246 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 171101005247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 171101005248 Walker A/P-loop; other site 171101005249 ATP binding site [chemical binding]; other site 171101005250 Q-loop/lid; other site 171101005251 ABC transporter signature motif; other site 171101005252 Walker B; other site 171101005253 D-loop; other site 171101005254 H-loop/switch region; other site 171101005255 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 171101005256 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 171101005257 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 171101005258 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 171101005259 dimer interface [polypeptide binding]; other site 171101005260 conserved gate region; other site 171101005261 putative PBP binding loops; other site 171101005262 ABC-ATPase subunit interface; other site 171101005263 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 171101005264 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 171101005265 dimer interface [polypeptide binding]; other site 171101005266 conserved gate region; other site 171101005267 putative PBP binding loops; other site 171101005268 ABC-ATPase subunit interface; other site 171101005269 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 171101005270 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 171101005271 peptide binding site [polypeptide binding]; other site 171101005272 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 171101005273 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 171101005274 sucrose phosphorylase; Provisional; Region: PRK13840 171101005275 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 171101005276 active site 171101005277 homodimer interface [polypeptide binding]; other site 171101005278 catalytic site [active] 171101005279 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101005280 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 171101005281 dimer interface [polypeptide binding]; other site 171101005282 conserved gate region; other site 171101005283 putative PBP binding loops; other site 171101005284 ABC-ATPase subunit interface; other site 171101005285 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 171101005286 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 171101005287 dimer interface [polypeptide binding]; other site 171101005288 conserved gate region; other site 171101005289 putative PBP binding loops; other site 171101005290 ABC-ATPase subunit interface; other site 171101005291 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 171101005292 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 171101005293 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 171101005294 Melibiase; Region: Melibiase; pfam02065 171101005295 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 171101005296 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 171101005297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101005298 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 171101005299 Biotin operon repressor [Transcription]; Region: BirA; COG1654 171101005300 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 171101005301 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 171101005302 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 171101005303 TRAM domain; Region: TRAM; cl01282 171101005304 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 171101005305 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 171101005306 S-adenosylmethionine binding site [chemical binding]; other site 171101005307 recombination regulator RecX; Provisional; Region: recX; PRK14135 171101005308 hypothetical protein; Provisional; Region: PRK13662 171101005309 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101005310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 171101005311 zinc-finger of transposase IS204/IS1001/IS1096/IS1165; Region: zf-ISL3; pfam14690 171101005312 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 171101005313 Transposase; Region: DDE_Tnp_ISL3; pfam01610 171101005314 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 171101005315 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 171101005316 ring oligomerisation interface [polypeptide binding]; other site 171101005317 ATP/Mg binding site [chemical binding]; other site 171101005318 stacking interactions; other site 171101005319 hinge regions; other site 171101005320 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 171101005321 oligomerisation interface [polypeptide binding]; other site 171101005322 mobile loop; other site 171101005323 roof hairpin; other site 171101005324 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 171101005325 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 171101005326 dimer interface [polypeptide binding]; other site 171101005327 ssDNA binding site [nucleotide binding]; other site 171101005328 tetramer (dimer of dimers) interface [polypeptide binding]; other site 171101005329 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 171101005330 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 171101005331 putative NAD(P) binding site [chemical binding]; other site 171101005332 homodimer interface [polypeptide binding]; other site 171101005333 homotetramer interface [polypeptide binding]; other site 171101005334 active site 171101005335 Domain of unknown function (DUF4479); Region: DUF4479; pfam14794 171101005336 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 171101005337 putative tRNA-binding site [nucleotide binding]; other site 171101005338 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 171101005339 catalytic residues [active] 171101005340 Domain of unknown function (DUF4651); Region: DUF4651; pfam15513 171101005341 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; cl19753 171101005342 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 171101005343 LytTr DNA-binding domain; Region: LytTR; smart00850 171101005344 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 171101005345 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 171101005346 active site 171101005347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4898 171101005348 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 171101005349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005350 Walker A/P-loop; other site 171101005351 ATP binding site [chemical binding]; other site 171101005352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005353 Walker A/P-loop; other site 171101005354 ATP binding site [chemical binding]; other site 171101005355 Q-loop/lid; other site 171101005356 ABC transporter signature motif; other site 171101005357 Walker B; other site 171101005358 D-loop; other site 171101005359 H-loop/switch region; other site 171101005360 hypothetical protein; Provisional; Region: PRK12378 171101005361 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 171101005362 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 171101005363 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101005364 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 171101005365 non-specific DNA binding site [nucleotide binding]; other site 171101005366 salt bridge; other site 171101005367 sequence-specific DNA binding site [nucleotide binding]; other site 171101005368 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101005369 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 171101005370 amidase catalytic site [active] 171101005371 Zn binding residues [ion binding]; other site 171101005372 substrate binding site [chemical binding]; other site 171101005373 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005374 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101005375 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 171101005376 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 171101005377 recombinase A; Provisional; Region: recA; PRK09354 171101005378 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 171101005379 hexamer interface [polypeptide binding]; other site 171101005380 Walker A motif; other site 171101005381 ATP binding site [chemical binding]; other site 171101005382 Walker B motif; other site 171101005383 competence damage-inducible protein A; Provisional; Region: PRK00549 171101005384 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 171101005385 putative MPT binding site; other site 171101005386 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 171101005387 Transcriptional regulator [Transcription]; Region: LytR; COG1316 171101005388 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 171101005389 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 171101005390 Coenzyme A binding pocket [chemical binding]; other site 171101005391 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 171101005392 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101005393 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 171101005394 non-specific DNA binding site [nucleotide binding]; other site 171101005395 salt bridge; other site 171101005396 sequence-specific DNA binding site [nucleotide binding]; other site 171101005397 type 2 lantibiotic, SP_1948 family; Region: lant_SP_1948; TIGR03893 171101005398 type 2 lantibiotic, SP_1948 family; Region: lant_SP_1948; TIGR03893 171101005399 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 171101005400 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 171101005401 active site 171101005402 zinc binding site [ion binding]; other site 171101005403 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 171101005404 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 171101005405 Peptidase family M50; Region: Peptidase_M50; pfam02163 171101005406 active site 171101005407 putative substrate binding region [chemical binding]; other site 171101005408 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 171101005409 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39F; cd02425 171101005410 putative active site [active] 171101005411 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101005412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005413 Walker A/P-loop; other site 171101005414 ATP binding site [chemical binding]; other site 171101005415 Q-loop/lid; other site 171101005416 ABC transporter signature motif; other site 171101005417 Walker B; other site 171101005418 D-loop; other site 171101005419 H-loop/switch region; other site 171101005420 Peptidase S8 family domain in Lantiobiotic (lanthionine-containing antibiotics) specific proteases; Region: Peptidases_S8_Lantibiotic_specific_protease; cd07482 171101005421 Subtilase family; Region: Peptidase_S8; pfam00082 171101005422 active site 171101005423 catalytic triad [active] 171101005424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 171101005425 Phosphoenolpyruvate carboxylase; Region: PEPcase_2; cl17501 171101005426 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 171101005427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005428 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101005429 Walker A/P-loop; other site 171101005430 ATP binding site [chemical binding]; other site 171101005431 Q-loop/lid; other site 171101005432 ABC transporter signature motif; other site 171101005433 Walker B; other site 171101005434 D-loop; other site 171101005435 H-loop/switch region; other site 171101005436 Nucleoside diphosphate kinase; Region: NDK; pfam00334 171101005437 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 171101005438 active site 171101005439 multimer interface [polypeptide binding]; other site 171101005440 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 171101005441 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 171101005442 beta and beta' interface [polypeptide binding]; other site 171101005443 beta' and sigma factor interface [polypeptide binding]; other site 171101005444 Zn-binding [ion binding]; other site 171101005445 active site region [active] 171101005446 catalytic site [active] 171101005447 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 171101005448 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 171101005449 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 171101005450 G-loop; other site 171101005451 DNA binding site [nucleotide binding] 171101005452 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 171101005453 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 171101005454 RPB12 interaction site [polypeptide binding]; other site 171101005455 RPB1 interaction site [polypeptide binding]; other site 171101005456 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 171101005457 RPB10 interaction site [polypeptide binding]; other site 171101005458 Peptidase family M23; Region: Peptidase_M23; pfam01551 171101005459 RPB11 interaction site [polypeptide binding]; other site 171101005460 RPB3 interaction site [polypeptide binding]; other site 171101005461 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 171101005462 Domain of unknown function DUF21; Region: DUF21; pfam01595 171101005463 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 171101005464 Transporter associated domain; Region: CorC_HlyC; pfam03471 171101005465 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 171101005466 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 171101005467 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 171101005468 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 171101005469 hinge; other site 171101005470 active site 171101005471 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 171101005472 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 171101005473 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 171101005474 protein binding site [polypeptide binding]; other site 171101005475 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 171101005476 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 171101005477 active site 171101005478 (T/H)XGH motif; other site 171101005479 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 171101005480 S-adenosylmethionine binding site [chemical binding]; other site 171101005481 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 171101005482 dimer interface [polypeptide binding]; other site 171101005483 active site 171101005484 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 171101005485 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 171101005486 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 171101005487 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 171101005488 acylphosphatase; Provisional; Region: PRK14434 171101005489 OxaA-like protein precursor; Provisional; Region: PRK02463 171101005490 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 171101005491 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 171101005492 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 171101005493 FeS/SAM binding site; other site 171101005494 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 171101005495 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 171101005496 active site 171101005497 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 171101005498 substrate binding site [chemical binding]; other site 171101005499 catalytic residues [active] 171101005500 dimer interface [polypeptide binding]; other site 171101005501 pur operon repressor; Provisional; Region: PRK09213 171101005502 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 171101005503 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101005504 active site 171101005505 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 171101005506 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 171101005507 generic binding surface II; other site 171101005508 generic binding surface I; other site 171101005509 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 171101005510 Zn2+ binding site [ion binding]; other site 171101005511 Mg2+ binding site [ion binding]; other site 171101005512 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 171101005513 RmuC family; Region: RmuC; pfam02646 171101005514 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 171101005515 Thiamine pyrophosphokinase; Region: TPK; cd07995 171101005516 active site 171101005517 dimerization interface [polypeptide binding]; other site 171101005518 thiamine binding site [chemical binding]; other site 171101005519 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 171101005520 substrate binding site [chemical binding]; other site 171101005521 hexamer interface [polypeptide binding]; other site 171101005522 metal binding site [ion binding]; metal-binding site 171101005523 GTPase RsgA; Reviewed; Region: PRK00098 171101005524 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 171101005525 RNA binding site [nucleotide binding]; other site 171101005526 homodimer interface [polypeptide binding]; other site 171101005527 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 171101005528 GTPase/Zn-binding domain interface [polypeptide binding]; other site 171101005529 GTP/Mg2+ binding site [chemical binding]; other site 171101005530 G4 box; other site 171101005531 G5 box; other site 171101005532 G1 box; other site 171101005533 Switch I region; other site 171101005534 G2 box; other site 171101005535 G3 box; other site 171101005536 Switch II region; other site 171101005537 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 171101005538 S-adenosylmethionine binding site [chemical binding]; other site 171101005539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005540 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 171101005541 Walker A/P-loop; other site 171101005542 ATP binding site [chemical binding]; other site 171101005543 Q-loop/lid; other site 171101005544 ABC transporter signature motif; other site 171101005545 Walker B; other site 171101005546 D-loop; other site 171101005547 H-loop/switch region; other site 171101005548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 171101005549 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 171101005550 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101005551 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 171101005552 non-specific DNA binding site [nucleotide binding]; other site 171101005553 salt bridge; other site 171101005554 sequence-specific DNA binding site [nucleotide binding]; other site 171101005555 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 171101005556 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 171101005557 putative active site [active] 171101005558 putative metal binding site [ion binding]; other site 171101005559 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 171101005560 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 171101005561 active site 171101005562 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 171101005563 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 171101005564 aminotransferase AlaT; Validated; Region: PRK09265 171101005565 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 171101005566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101005567 homodimer interface [polypeptide binding]; other site 171101005568 catalytic residue [active] 171101005569 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 171101005570 Ligand Binding Site [chemical binding]; other site 171101005571 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 171101005572 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 171101005573 active site 171101005574 motif I; other site 171101005575 motif II; other site 171101005576 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 171101005577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 171101005578 metal binding site [ion binding]; metal-binding site 171101005579 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 171101005580 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 171101005581 active site 171101005582 homotetramer interface [polypeptide binding]; other site 171101005583 homodimer interface [polypeptide binding]; other site 171101005584 catabolite control protein A; Region: ccpA; TIGR01481 171101005585 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101005586 DNA binding site [nucleotide binding] 171101005587 domain linker motif; other site 171101005588 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 171101005589 dimerization interface [polypeptide binding]; other site 171101005590 effector binding site; other site 171101005591 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 171101005592 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 171101005593 active site 171101005594 phosphorylation site [posttranslational modification] 171101005595 intermolecular recognition site; other site 171101005596 dimerization interface [polypeptide binding]; other site 171101005597 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 171101005598 DNA binding residues [nucleotide binding] 171101005599 dimerization interface [polypeptide binding]; other site 171101005600 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 171101005601 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 171101005602 Histidine kinase; Region: HisKA_3; pfam07730 171101005603 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 171101005604 ATP binding site [chemical binding]; other site 171101005605 Mg2+ binding site [ion binding]; other site 171101005606 G-X-G motif; other site 171101005607 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 171101005608 ABC-2 type transporter; Region: ABC2_membrane; cl17235 171101005609 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 171101005610 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 171101005611 Walker A/P-loop; other site 171101005612 ATP binding site [chemical binding]; other site 171101005613 Q-loop/lid; other site 171101005614 ABC transporter signature motif; other site 171101005615 Walker B; other site 171101005616 D-loop; other site 171101005617 H-loop/switch region; other site 171101005618 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 171101005619 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 171101005620 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 171101005621 putative homodimer interface [polypeptide binding]; other site 171101005622 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 171101005623 heterodimer interface [polypeptide binding]; other site 171101005624 homodimer interface [polypeptide binding]; other site 171101005625 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 171101005626 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 171101005627 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 171101005628 Transglycosylase; Region: Transgly; pfam00912 171101005629 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 171101005630 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 171101005631 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 171101005632 active site 171101005633 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 171101005634 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 171101005635 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 171101005636 FtsX-like permease family; Region: FtsX; pfam02687 171101005637 Transposase; Region: HTH_Tnp_IS630; pfam01710 171101005638 Winged helix-turn helix; Region: HTH_29; pfam13551 171101005639 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 171101005640 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 171101005641 dimerization interface [polypeptide binding]; other site 171101005642 active site 171101005643 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 171101005644 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 171101005645 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 171101005646 transmembrane helices; other site 171101005647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 171101005648 Walker A/P-loop; other site 171101005649 ATP binding site [chemical binding]; other site 171101005650 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 171101005651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 171101005652 DNA-binding site [nucleotide binding]; DNA binding site 171101005653 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 171101005654 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 171101005655 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 171101005656 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 171101005657 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 171101005658 active site 171101005659 P-loop; other site 171101005660 phosphorylation site [posttranslational modification] 171101005661 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 171101005662 methionine cluster; other site 171101005663 active site 171101005664 phosphorylation site [posttranslational modification] 171101005665 metal binding site [ion binding]; metal-binding site 171101005666 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 171101005667 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 171101005668 putative catalytic cysteine [active] 171101005669 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 171101005670 putative active site [active] 171101005671 metal binding site [ion binding]; metal-binding site 171101005672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 171101005673 Low molecular weight phosphatase family; Region: LMWPc; cd00115 171101005674 active site 171101005675 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 171101005676 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 171101005677 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 171101005678 TPP-binding site [chemical binding]; other site 171101005679 dimer interface [polypeptide binding]; other site 171101005680 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 171101005681 PYR/PP interface [polypeptide binding]; other site 171101005682 dimer interface [polypeptide binding]; other site 171101005683 TPP binding site [chemical binding]; other site 171101005684 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 171101005685 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 171101005686 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101005687 PRD domain; Region: PRD; pfam00874 171101005688 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 171101005689 active site 171101005690 P-loop; other site 171101005691 phosphorylation site [posttranslational modification] 171101005692 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 171101005693 intersubunit interface [polypeptide binding]; other site 171101005694 active site 171101005695 Zn2+ binding site [ion binding]; other site 171101005696 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 171101005697 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 171101005698 AP (apurinic/apyrimidinic) site pocket; other site 171101005699 DNA interaction; other site 171101005700 Metal-binding active site; metal-binding site 171101005701 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 171101005702 active site 171101005703 dimer interface [polypeptide binding]; other site 171101005704 magnesium binding site [ion binding]; other site 171101005705 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 171101005706 active site 171101005707 phosphorylation site [posttranslational modification] 171101005708 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 171101005709 active site 171101005710 P-loop; other site 171101005711 phosphorylation site [posttranslational modification] 171101005712 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 171101005713 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 171101005714 Jag N-terminus; Region: Jag_N; pfam14804 171101005715 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 171101005716 G-X-X-G motif; other site 171101005717 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 171101005718 RxxxH motif; other site 171101005719 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 171101005720 ribonuclease P; Reviewed; Region: rnpA; PRK00499 171101005721 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 171101005722 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 171101005723 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 171101005724 S-adenosylmethionine binding site [chemical binding]; other site 171101005725 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 171101005726 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 171101005727 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 171101005728 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 171101005729 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 171101005730 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 171101005731 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 171101005732 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 171101005733 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 171101005734 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 171101005735 Walker A motif; other site 171101005736 ATP binding site [chemical binding]; other site 171101005737 Walker B motif; other site 171101005738 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 171101005739 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 171101005740 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 171101005741 catalytic Zn binding site [ion binding]; other site 171101005742 structural Zn binding site [ion binding]; other site 171101005743 NAD(P) binding site [chemical binding]; other site 171101005744 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 171101005745 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 171101005746 active site 171101005747 dimer interface [polypeptide binding]; other site 171101005748 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 171101005749 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 171101005750 catalytic triad [active] 171101005751 catalytic triad [active] 171101005752 oxyanion hole [active] 171101005753 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 171101005754 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 171101005755 Protein of unknown function (DUF975); Region: DUF975; cl10504 171101005756 Transcriptional regulators [Transcription]; Region: MarR; COG1846 171101005757 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 171101005758 putative DNA binding site [nucleotide binding]; other site 171101005759 putative Zn2+ binding site [ion binding]; other site 171101005760 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 171101005761 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 171101005762 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 171101005763 active site 171101005764 motif I; other site 171101005765 motif II; other site 171101005766 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 171101005767 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 171101005768 threonine synthase; Validated; Region: PRK09225 171101005769 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 171101005770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101005771 catalytic residue [active] 171101005772 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 171101005773 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 171101005774 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 171101005775 active site 171101005776 catalytic motif [active] 171101005777 Zn binding site [ion binding]; other site 171101005778 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 171101005779 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 171101005780 active site 171101005781 HIGH motif; other site 171101005782 KMSKS motif; other site 171101005783 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 171101005784 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 171101005785 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 171101005786 active site 171101005787 dimer interface [polypeptide binding]; other site 171101005788 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 171101005789 dimer interface [polypeptide binding]; other site 171101005790 active site 171101005791 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 171101005792 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 171101005793 catalytic triad [active] 171101005794 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101005795 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101005796 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005797 Walker A/P-loop; other site 171101005798 ATP binding site [chemical binding]; other site 171101005799 Q-loop/lid; other site 171101005800 ABC transporter signature motif; other site 171101005801 Walker B; other site 171101005802 D-loop; other site 171101005803 H-loop/switch region; other site 171101005804 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 171101005805 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 171101005806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 171101005807 Walker A/P-loop; other site 171101005808 ATP binding site [chemical binding]; other site 171101005809 Q-loop/lid; other site 171101005810 ABC transporter signature motif; other site 171101005811 Walker B; other site 171101005812 D-loop; other site 171101005813 H-loop/switch region; other site 171101005814 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 171101005815 MutS domain I; Region: MutS_I; pfam01624 171101005816 MutS domain II; Region: MutS_II; pfam05188 171101005817 MutS domain III; Region: MutS_III; pfam05192 171101005818 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 171101005819 Walker A/P-loop; other site 171101005820 ATP binding site [chemical binding]; other site 171101005821 Q-loop/lid; other site 171101005822 ABC transporter signature motif; other site 171101005823 Walker B; other site 171101005824 D-loop; other site 171101005825 H-loop/switch region; other site 171101005826 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 171101005827 arginine repressor; Region: argR_whole; TIGR01529 171101005828 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 171101005829 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 171101005830 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 171101005831 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 171101005832 active site 171101005833 HIGH motif; other site 171101005834 KMSK motif region; other site 171101005835 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 171101005836 tRNA binding surface [nucleotide binding]; other site 171101005837 anticodon binding site; other site 171101005838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101005839 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 171101005840 Uncharacterized conserved protein [Function unknown]; Region: COG3542 171101005841 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101005842 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 171101005843 active site 171101005844 phosphorylation site [posttranslational modification] 171101005845 intermolecular recognition site; other site 171101005846 dimerization interface [polypeptide binding]; other site 171101005847 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 171101005848 DNA binding site [nucleotide binding] 171101005849 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 171101005850 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 171101005851 dimer interface [polypeptide binding]; other site 171101005852 phosphorylation site [posttranslational modification] 171101005853 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 171101005854 ATP binding site [chemical binding]; other site 171101005855 Mg2+ binding site [ion binding]; other site 171101005856 G-X-G motif; other site 171101005857 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 171101005858 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 171101005859 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 171101005860 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 171101005861 dimer interface [polypeptide binding]; other site 171101005862 conserved gate region; other site 171101005863 putative PBP binding loops; other site 171101005864 ABC-ATPase subunit interface; other site 171101005865 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 171101005866 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 171101005867 dimer interface [polypeptide binding]; other site 171101005868 conserved gate region; other site 171101005869 putative PBP binding loops; other site 171101005870 ABC-ATPase subunit interface; other site 171101005871 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 171101005872 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 171101005873 Walker A/P-loop; other site 171101005874 ATP binding site [chemical binding]; other site 171101005875 Q-loop/lid; other site 171101005876 ABC transporter signature motif; other site 171101005877 Walker B; other site 171101005878 D-loop; other site 171101005879 H-loop/switch region; other site 171101005880 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 171101005881 PhoU domain; Region: PhoU; pfam01895 171101005882 PhoU domain; Region: PhoU; pfam01895 171101005883 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 171101005884 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 171101005885 non-specific DNA binding site [nucleotide binding]; other site 171101005886 salt bridge; other site 171101005887 sequence-specific DNA binding site [nucleotide binding]; other site 171101005888 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 171101005889 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 171101005890 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 171101005891 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 171101005892 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 171101005893 active site 171101005894 tetramer interface; other site 171101005895 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 171101005896 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 171101005897 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 171101005898 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 171101005899 metal binding site [ion binding]; metal-binding site 171101005900 putative dimer interface [polypeptide binding]; other site 171101005901 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 171101005902 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 171101005903 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 171101005904 putative trimer interface [polypeptide binding]; other site 171101005905 putative CoA binding site [chemical binding]; other site 171101005906 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 171101005907 EamA-like transporter family; Region: EamA; pfam00892 171101005908 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 171101005909 Transglycosylase; Region: Transgly; pfam00912 171101005910 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 171101005911 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 171101005912 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 171101005913 active site 171101005914 HIGH motif; other site 171101005915 dimer interface [polypeptide binding]; other site 171101005916 KMSKS motif; other site 171101005917 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 171101005918 RNA binding surface [nucleotide binding]; other site 171101005919 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 171101005920 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 171101005921 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 171101005922 motif II; other site 171101005923 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 171101005924 S-adenosylmethionine binding site [chemical binding]; other site 171101005925 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 171101005926 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 171101005927 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 171101005928 4-alpha-glucanotransferase; Provisional; Region: PRK14508 171101005929 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 171101005930 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 171101005931 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 171101005932 dimer interface [polypeptide binding]; other site 171101005933 conserved gate region; other site 171101005934 putative PBP binding loops; other site 171101005935 ABC-ATPase subunit interface; other site 171101005936 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 171101005937 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 171101005938 dimer interface [polypeptide binding]; other site 171101005939 conserved gate region; other site 171101005940 putative PBP binding loops; other site 171101005941 ABC-ATPase subunit interface; other site 171101005942 Predicted integral membrane protein [Function unknown]; Region: COG5521 171101005943 Transcriptional regulators [Transcription]; Region: PurR; COG1609 171101005944 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 171101005945 DNA binding site [nucleotide binding] 171101005946 domain linker motif; other site 171101005947 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 171101005948 putative dimerization interface [polypeptide binding]; other site 171101005949 putative ligand binding site [chemical binding]; other site 171101005950 Uncharacterized conserved protein [Function unknown]; Region: COG1284 171101005951 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101005952 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 171101005953 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 171101005954 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 171101005955 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 171101005956 dimer interface [polypeptide binding]; other site 171101005957 anticodon binding site; other site 171101005958 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 171101005959 homodimer interface [polypeptide binding]; other site 171101005960 motif 1; other site 171101005961 active site 171101005962 motif 2; other site 171101005963 GAD domain; Region: GAD; pfam02938 171101005964 motif 3; other site 171101005965 CAAX protease self-immunity; Region: Abi; pfam02517 171101005966 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 171101005967 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 171101005968 non-specific DNA binding site [nucleotide binding]; other site 171101005969 salt bridge; other site 171101005970 sequence-specific DNA binding site [nucleotide binding]; other site 171101005971 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 171101005972 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 171101005973 dimer interface [polypeptide binding]; other site 171101005974 motif 1; other site 171101005975 active site 171101005976 motif 2; other site 171101005977 motif 3; other site 171101005978 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 171101005979 anticodon binding site; other site 171101005980 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 171101005981 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 171101005982 non-specific DNA binding site [nucleotide binding]; other site 171101005983 salt bridge; other site 171101005984 sequence-specific DNA binding site [nucleotide binding]; other site 171101005985 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 171101005986 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 171101005987 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 171101005988 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 171101005989 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 171101005990 PYR/PP interface [polypeptide binding]; other site 171101005991 dimer interface [polypeptide binding]; other site 171101005992 TPP binding site [chemical binding]; other site 171101005993 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 171101005994 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 171101005995 TPP-binding site [chemical binding]; other site 171101005996 dimer interface [polypeptide binding]; other site 171101005997 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 171101005998 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 171101005999 active site 171101006000 P-loop; other site 171101006001 phosphorylation site [posttranslational modification] 171101006002 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 171101006003 PRD domain; Region: PRD; pfam00874 171101006004 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 171101006005 active site 171101006006 P-loop; other site 171101006007 phosphorylation site [posttranslational modification] 171101006008 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 171101006009 active site 171101006010 phosphorylation site [posttranslational modification] 171101006011 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u2; cd03402 171101006012 prohibitin homologues; Region: PHB; smart00244 171101006013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 171101006014 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 171101006015 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 171101006016 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 171101006017 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 171101006018 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101006019 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006020 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006021 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006022 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006023 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006024 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006025 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006026 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006027 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006028 Divergent AAA domain; Region: AAA_4; pfam04326 171101006029 Helix-turn-helix of DDE superfamily endonuclease; Region: HTH_Tnp_4; pfam13613 171101006030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 171101006031 DDE superfamily endonuclease; Region: DDE_Tnp_4; cl17710 171101006032 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 171101006033 putative active site [active] 171101006034 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 171101006035 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 171101006036 nucleotide binding site [chemical binding]; other site 171101006037 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 171101006038 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 171101006039 active site 171101006040 metal binding site [ion binding]; metal-binding site 171101006041 homodimer interface [polypeptide binding]; other site 171101006042 catalytic site [active] 171101006043 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 171101006044 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 171101006045 Uncharacterized conserved protein [Function unknown]; Region: COG3538 171101006046 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 171101006047 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 171101006048 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 171101006049 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 171101006050 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 171101006051 ornithine carbamoyltransferase; Validated; Region: PRK02102 171101006052 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 171101006053 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 171101006054 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 171101006055 putative substrate binding site [chemical binding]; other site 171101006056 nucleotide binding site [chemical binding]; other site 171101006057 nucleotide binding site [chemical binding]; other site 171101006058 homodimer interface [polypeptide binding]; other site 171101006059 Predicted membrane protein [Function unknown]; Region: COG1288 171101006060 hypothetical protein; Provisional; Region: PRK07205 171101006061 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 171101006062 active site 171101006063 metal binding site [ion binding]; metal-binding site 171101006064 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 171101006065 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 171101006066 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u4; cd03407 171101006067 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 171101006068 dimer interface [polypeptide binding]; other site 171101006069 active site 171101006070 metal binding site [ion binding]; metal-binding site 171101006071 L-fucose isomerase; Provisional; Region: fucI; PRK10991 171101006072 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 171101006073 hexamer (dimer of trimers) interface [polypeptide binding]; other site 171101006074 trimer interface [polypeptide binding]; other site 171101006075 substrate binding site [chemical binding]; other site 171101006076 Mn binding site [ion binding]; other site 171101006077 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 171101006078 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 171101006079 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 171101006080 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 171101006081 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl19067 171101006082 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hyd_65N_2; pfam14498 171101006083 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 171101006084 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 171101006085 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 171101006086 active site 171101006087 phosphorylation site [posttranslational modification] 171101006088 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 171101006089 active pocket/dimerization site; other site 171101006090 active site 171101006091 phosphorylation site [posttranslational modification] 171101006092 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 171101006093 L-fuculose phosphate aldolase; Provisional; Region: PRK06833 171101006094 intersubunit interface [polypeptide binding]; other site 171101006095 active site 171101006096 Zn2+ binding site [ion binding]; other site 171101006097 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 171101006098 N- and C-terminal domain interface [polypeptide binding]; other site 171101006099 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 171101006100 active site 171101006101 putative catalytic site [active] 171101006102 metal binding site [ion binding]; metal-binding site 171101006103 ATP binding site [chemical binding]; other site 171101006104 carbohydrate binding site [chemical binding]; other site 171101006105 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 171101006106 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 171101006107 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 171101006108 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 171101006109 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 171101006110 metal binding site [ion binding]; metal-binding site 171101006111 Predicted periplasmic or secreted protein [General function prediction only]; Region: COG3443 171101006112 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 171101006113 ABC-ATPase subunit interface; other site 171101006114 dimer interface [polypeptide binding]; other site 171101006115 putative PBP binding regions; other site 171101006116 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 171101006117 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 171101006118 Transcriptional regulators [Transcription]; Region: MarR; COG1846 171101006119 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 171101006120 putative Zn2+ binding site [ion binding]; other site 171101006121 putative DNA binding site [nucleotide binding]; other site 171101006122 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 171101006123 DltD N-terminal region; Region: DltD_N; pfam04915 171101006124 DltD central region; Region: DltD_M; pfam04918 171101006125 DltD C-terminal region; Region: DltD_C; pfam04914 171101006126 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 171101006127 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 171101006128 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 171101006129 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 171101006130 acyl-activating enzyme (AAE) consensus motif; other site 171101006131 AMP binding site [chemical binding]; other site 171101006132 H+ Antiporter protein; Region: 2A0121; TIGR00900 171101006133 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 171101006134 amphipathic channel; other site 171101006135 Asn-Pro-Ala signature motifs; other site 171101006136 glycerol kinase; Provisional; Region: glpK; PRK00047 171101006137 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 171101006138 N- and C-terminal domain interface [polypeptide binding]; other site 171101006139 active site 171101006140 MgATP binding site [chemical binding]; other site 171101006141 catalytic site [active] 171101006142 metal binding site [ion binding]; metal-binding site 171101006143 glycerol binding site [chemical binding]; other site 171101006144 homotetramer interface [polypeptide binding]; other site 171101006145 homodimer interface [polypeptide binding]; other site 171101006146 FBP binding site [chemical binding]; other site 171101006147 protein IIAGlc interface [polypeptide binding]; other site 171101006148 Mga helix-turn-helix domain; Region: Mga; pfam05043 171101006149 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 171101006150 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 171101006151 dimerization interface [polypeptide binding]; other site 171101006152 domain crossover interface; other site 171101006153 redox-dependent activation switch; other site 171101006154 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 171101006155 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 171101006156 FMN binding site [chemical binding]; other site 171101006157 active site 171101006158 catalytic residues [active] 171101006159 substrate binding site [chemical binding]; other site 171101006160 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 171101006161 RICH domain; Region: RICH; pfam05062 171101006162 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101006163 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 171101006164 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006165 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006166 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006167 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006168 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006169 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006170 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006171 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006172 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 171101006174 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 171101006175 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 171101006176 dimerization interface [polypeptide binding]; other site 171101006177 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 171101006178 dimer interface [polypeptide binding]; other site 171101006179 phosphorylation site [posttranslational modification] 171101006180 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 171101006181 ATP binding site [chemical binding]; other site 171101006182 Mg2+ binding site [ion binding]; other site 171101006183 G-X-G motif; other site 171101006184 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 171101006185 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 171101006186 active site 171101006187 phosphorylation site [posttranslational modification] 171101006188 intermolecular recognition site; other site 171101006189 dimerization interface [polypeptide binding]; other site 171101006190 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 171101006191 DNA binding site [nucleotide binding] 171101006192 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 171101006193 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 171101006194 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 171101006195 Walker A/P-loop; other site 171101006196 ATP binding site [chemical binding]; other site 171101006197 Q-loop/lid; other site 171101006198 ABC transporter signature motif; other site 171101006199 Walker B; other site 171101006200 D-loop; other site 171101006201 H-loop/switch region; other site 171101006202 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 171101006203 NMT1/THI5 like; Region: NMT1; pfam09084 171101006204 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 171101006205 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 171101006206 dimer interface [polypeptide binding]; other site 171101006207 conserved gate region; other site 171101006208 putative PBP binding loops; other site 171101006209 ABC-ATPase subunit interface; other site 171101006210 Domain of unknown function DUF77; Region: DUF77; cl00307 171101006211 Surface antigen [General function prediction only]; Region: COG3942 171101006212 CHAP domain; Region: CHAP; pfam05257 171101006213 Bacterial SH3 domain; Region: SH3_5; pfam08460 171101006214 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 171101006215 Bacterial SH3 domain; Region: SH3_5; pfam08460 171101006216 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 171101006217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 171101006218 replicative DNA helicase; Provisional; Region: PRK05748 171101006219 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 171101006220 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 171101006221 Walker A motif; other site 171101006222 ATP binding site [chemical binding]; other site 171101006223 Walker B motif; other site 171101006224 DNA binding loops [nucleotide binding] 171101006225 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 171101006226 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 171101006227 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 171101006228 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 171101006229 DHH family; Region: DHH; pfam01368 171101006230 DHHA1 domain; Region: DHHA1; pfam02272 171101006231 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 171101006232 30S subunit binding site; other site 171101006233 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 171101006234 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 171101006235 active site 171101006236 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 171101006237 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 171101006238 ATP binding site [chemical binding]; other site 171101006239 putative Mg++ binding site [ion binding]; other site 171101006240 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 171101006241 nucleotide binding region [chemical binding]; other site 171101006242 ATP-binding site [chemical binding]; other site 171101006243 Uncharacterized conserved protein [Function unknown]; Region: COG1739 171101006244 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 171101006245 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 171101006246 cysteine synthase; Region: PLN02565 171101006247 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 171101006248 dimer interface [polypeptide binding]; other site 171101006249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 171101006250 catalytic residue [active] 171101006251 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 171101006252 elongation factor Ts; Provisional; Region: tsf; PRK09377 171101006253 UBA/TS-N domain; Region: UBA; pfam00627 171101006254 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 171101006255 rRNA interaction site [nucleotide binding]; other site 171101006256 S8 interaction site; other site 171101006257 putative laminin-1 binding site; other site 171101006258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 171101006259 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cl03075 171101006260 Surface antigen [General function prediction only]; Region: COG3942 171101006261 CHAP domain; Region: CHAP; pfam05257 171101006262 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 171101006263 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 171101006264 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 171101006265 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 171101006266 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 171101006267 Walker A/P-loop; other site 171101006268 ATP binding site [chemical binding]; other site 171101006269 Q-loop/lid; other site 171101006270 ABC transporter signature motif; other site 171101006271 Walker B; other site 171101006272 D-loop; other site 171101006273 H-loop/switch region; other site 171101006274 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 171101006275 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 171101006276 Walker A/P-loop; other site 171101006277 ATP binding site [chemical binding]; other site 171101006278 Q-loop/lid; other site 171101006279 ABC transporter signature motif; other site 171101006280 Walker B; other site 171101006281 D-loop; other site 171101006282 H-loop/switch region; other site 171101006283 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 171101006284 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 171101006285 Helix-turn-helix domain; Region: HTH_25; pfam13413 171101006286 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 171101006287 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 171101006288 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 171101006289 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 171101006290 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 171101006291 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 171101006292 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 171101006293 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 171101006294 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 171101006295 Walker A/P-loop; other site 171101006296 ATP binding site [chemical binding]; other site 171101006297 Q-loop/lid; other site 171101006298 ABC transporter signature motif; other site 171101006299 Walker B; other site 171101006300 D-loop; other site 171101006301 H-loop/switch region; other site 171101006302 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 171101006303 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 171101006304 active site 171101006305 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 171101006306 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 171101006307 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 171101006308 active site 171101006309 HIGH motif; other site 171101006310 dimer interface [polypeptide binding]; other site 171101006311 KMSKS motif; other site 171101006312 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 171101006313 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101006314 ABC transporter; Region: ABC_tran_2; pfam12848 171101006315 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 171101006316 Predicted membrane protein [Function unknown]; Region: COG4485 171101006317 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 171101006318 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 171101006319 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 171101006320 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 171101006321 active site 171101006322 phosphorylation site [posttranslational modification] 171101006323 intermolecular recognition site; other site 171101006324 dimerization interface [polypeptide binding]; other site 171101006325 LytTr DNA-binding domain; Region: LytTR; pfam04397 171101006326 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 171101006327 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 171101006328 COMC family; Region: ComC; pfam03047 171101006329 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 171101006330 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 171101006331 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 171101006332 PDZ domain of trypsin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 171101006333 protein binding site [polypeptide binding]; other site 171101006334 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 171101006335 ParB-like nuclease domain; Region: ParBc; pfam02195 171101006336 KorB domain; Region: KorB; pfam08535