-- dump date 20140620_085320 -- class Genbank::misc_feature -- table misc_feature_note -- id note 487213000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 487213000002 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 487213000003 Walker A motif; other site 487213000004 ATP binding site [chemical binding]; other site 487213000005 Walker B motif; other site 487213000006 arginine finger; other site 487213000007 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 487213000008 DnaA box-binding interface [nucleotide binding]; other site 487213000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 487213000010 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 487213000011 putative DNA binding surface [nucleotide binding]; other site 487213000012 dimer interface [polypeptide binding]; other site 487213000013 beta-clamp/clamp loader binding surface; other site 487213000014 beta-clamp/translesion DNA polymerase binding surface; other site 487213000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 487213000016 Protein of unknown function (DUF1492); Region: DUF1492; pfam07374 487213000017 D5 N terminal like; Region: D5_N; smart00885 487213000018 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 487213000019 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 487213000020 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 487213000021 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 487213000022 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 487213000023 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 487213000024 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213000025 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 487213000026 sequence-specific DNA binding site [nucleotide binding]; other site 487213000027 salt bridge; other site 487213000028 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 487213000029 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 487213000030 non-specific DNA binding site [nucleotide binding]; other site 487213000031 salt bridge; other site 487213000032 sequence-specific DNA binding site [nucleotide binding]; other site 487213000033 Predicted transcriptional regulator [Transcription]; Region: COG2932 487213000034 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 487213000035 Catalytic site [active] 487213000036 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 487213000037 Fic family protein [Function unknown]; Region: COG3177 487213000038 Fic/DOC family; Region: Fic; pfam02661 487213000039 Replication protein; Region: Rep_1; cl02412 487213000040 BRO family, N-terminal domain; Region: Bro-N; pfam02498 487213000041 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 487213000042 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 487213000043 Int/Topo IB signature motif; other site 487213000044 GTP-binding protein YchF; Reviewed; Region: PRK09601 487213000045 YchF GTPase; Region: YchF; cd01900 487213000046 G1 box; other site 487213000047 GTP/Mg2+ binding site [chemical binding]; other site 487213000048 Switch I region; other site 487213000049 G2 box; other site 487213000050 Switch II region; other site 487213000051 G3 box; other site 487213000052 G4 box; other site 487213000053 G5 box; other site 487213000054 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 487213000055 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 487213000056 putative active site [active] 487213000057 catalytic residue [active] 487213000058 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 487213000059 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 487213000060 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 487213000061 ATP binding site [chemical binding]; other site 487213000062 putative Mg++ binding site [ion binding]; other site 487213000063 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 487213000064 nucleotide binding region [chemical binding]; other site 487213000065 ATP-binding site [chemical binding]; other site 487213000066 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 487213000067 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 487213000068 RNA binding surface [nucleotide binding]; other site 487213000069 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 487213000070 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 487213000071 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 487213000072 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 487213000073 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 487213000074 Ligand Binding Site [chemical binding]; other site 487213000075 TilS substrate C-terminal domain; Region: TilS_C; smart00977 487213000076 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213000077 active site 487213000078 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 487213000079 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 487213000080 Walker A motif; other site 487213000081 ATP binding site [chemical binding]; other site 487213000082 Walker B motif; other site 487213000083 arginine finger; other site 487213000084 Peptidase family M41; Region: Peptidase_M41; pfam01434 487213000085 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 487213000086 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 487213000087 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 487213000088 GDP-binding site [chemical binding]; other site 487213000089 ACT binding site; other site 487213000090 IMP binding site; other site 487213000091 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 487213000092 nucleoside/Zn binding site; other site 487213000093 dimer interface [polypeptide binding]; other site 487213000094 catalytic motif [active] 487213000095 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 487213000096 trimer interface [polypeptide binding]; other site 487213000097 active site 487213000098 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 487213000099 catalytic core [active] 487213000100 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 487213000101 DNA repair protein RadA; Provisional; Region: PRK11823 487213000102 Walker A motif; other site 487213000103 ATP binding site [chemical binding]; other site 487213000104 Walker B motif; other site 487213000105 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 487213000106 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 487213000107 active site clefts [active] 487213000108 zinc binding site [ion binding]; other site 487213000109 dimer interface [polypeptide binding]; other site 487213000110 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 487213000111 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 487213000112 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 487213000113 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213000114 active site 487213000115 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 487213000116 DNA polymerase I; Provisional; Region: PRK05755 487213000117 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 487213000118 active site 487213000119 metal binding site 1 [ion binding]; metal-binding site 487213000120 putative 5' ssDNA interaction site; other site 487213000121 metal binding site 3; metal-binding site 487213000122 metal binding site 2 [ion binding]; metal-binding site 487213000123 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 487213000124 putative DNA binding site [nucleotide binding]; other site 487213000125 putative metal binding site [ion binding]; other site 487213000126 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 487213000127 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 487213000128 active site 487213000129 DNA binding site [nucleotide binding] 487213000130 catalytic site [active] 487213000131 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 487213000132 Predicted membrane protein [Function unknown]; Region: COG2855 487213000133 aromatic amino acid aminotransferase; Validated; Region: PRK07309 487213000134 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 487213000135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213000136 homodimer interface [polypeptide binding]; other site 487213000137 catalytic residue [active] 487213000138 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 487213000139 Recombination protein O N terminal; Region: RecO_N; pfam11967 487213000140 Recombination protein O C terminal; Region: RecO_C; pfam02565 487213000141 putative phosphate acyltransferase; Provisional; Region: PRK05331 487213000142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 487213000143 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 487213000144 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 487213000145 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 487213000146 putative active site [active] 487213000147 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213000148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213000149 Walker A/P-loop; other site 487213000150 ATP binding site [chemical binding]; other site 487213000151 Q-loop/lid; other site 487213000152 ABC transporter signature motif; other site 487213000153 Walker B; other site 487213000154 D-loop; other site 487213000155 H-loop/switch region; other site 487213000156 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 487213000157 HlyD family secretion protein; Region: HlyD_3; pfam13437 487213000158 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 487213000159 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 487213000160 ATP binding site [chemical binding]; other site 487213000161 active site 487213000162 substrate binding site [chemical binding]; other site 487213000163 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 487213000164 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 487213000165 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 487213000166 dimerization interface [polypeptide binding]; other site 487213000167 ATP binding site [chemical binding]; other site 487213000168 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 487213000169 dimerization interface [polypeptide binding]; other site 487213000170 ATP binding site [chemical binding]; other site 487213000171 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 487213000172 putative active site [active] 487213000173 catalytic triad [active] 487213000174 amidophosphoribosyltransferase; Provisional; Region: PRK07272 487213000175 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 487213000176 active site 487213000177 tetramer interface [polypeptide binding]; other site 487213000178 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213000179 active site 487213000180 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 487213000181 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 487213000182 dimerization interface [polypeptide binding]; other site 487213000183 putative ATP binding site [chemical binding]; other site 487213000184 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 487213000185 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 487213000186 active site 487213000187 substrate binding site [chemical binding]; other site 487213000188 cosubstrate binding site; other site 487213000189 catalytic site [active] 487213000190 VanZ like family; Region: VanZ; pfam04892 487213000191 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 487213000192 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 487213000193 purine monophosphate binding site [chemical binding]; other site 487213000194 dimer interface [polypeptide binding]; other site 487213000195 putative catalytic residues [active] 487213000196 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 487213000197 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 487213000198 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 487213000199 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 487213000200 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 487213000201 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 487213000202 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 487213000203 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 487213000204 ATP-grasp domain; Region: ATP-grasp; pfam02222 487213000205 adenylosuccinate lyase; Provisional; Region: PRK07492 487213000206 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 487213000207 tetramer interface [polypeptide binding]; other site 487213000208 active site 487213000209 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 487213000210 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 487213000211 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 487213000212 active site 487213000213 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 487213000214 active site 487213000215 G5 domain; Region: G5; pfam07501 487213000216 G5 domain; Region: G5; pfam07501 487213000217 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 487213000218 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 487213000219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213000220 DNA-binding site [nucleotide binding]; DNA binding site 487213000221 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 487213000222 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 487213000223 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 487213000224 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 487213000225 active site 487213000226 phosphorylation site [posttranslational modification] 487213000227 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 487213000228 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 487213000229 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 487213000230 active pocket/dimerization site; other site 487213000231 active site 487213000232 phosphorylation site [posttranslational modification] 487213000233 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 487213000234 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 487213000235 dimer interface [polypeptide binding]; other site 487213000236 active site 487213000237 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 487213000238 putative active site [active] 487213000239 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 487213000240 active site 487213000241 catalytic residues [active] 487213000242 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 487213000243 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 487213000244 putative metal binding site [ion binding]; other site 487213000245 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 487213000246 active site 487213000247 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 487213000248 putative homodimer interface [polypeptide binding]; other site 487213000249 putative homotetramer interface [polypeptide binding]; other site 487213000250 putative metal binding site [ion binding]; other site 487213000251 putative homodimer-homodimer interface [polypeptide binding]; other site 487213000252 putative allosteric switch controlling residues; other site 487213000253 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 487213000254 active site residue [active] 487213000255 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 487213000256 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 487213000257 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 487213000258 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 487213000259 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 487213000260 TrkA-N domain; Region: TrkA_N; pfam02254 487213000261 Fibronectin-binding repeat; Region: SSURE; pfam11966 487213000262 Fibronectin-binding repeat; Region: SSURE; pfam11966 487213000263 Fibronectin-binding repeat; Region: SSURE; pfam11966 487213000264 Fibronectin-binding repeat; Region: SSURE; pfam11966 487213000265 Fibronectin-binding repeat; Region: SSURE; pfam11966 487213000266 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213000267 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 487213000268 active site 487213000269 phosphorylation site [posttranslational modification] 487213000270 intermolecular recognition site; other site 487213000271 dimerization interface [polypeptide binding]; other site 487213000272 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 487213000273 DNA binding site [nucleotide binding] 487213000274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 487213000275 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 487213000276 dimerization interface [polypeptide binding]; other site 487213000277 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 487213000278 dimer interface [polypeptide binding]; other site 487213000279 phosphorylation site [posttranslational modification] 487213000280 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 487213000281 ATP binding site [chemical binding]; other site 487213000282 Mg2+ binding site [ion binding]; other site 487213000283 G-X-G motif; other site 487213000284 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 487213000285 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 487213000286 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 487213000287 RNA binding surface [nucleotide binding]; other site 487213000288 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 487213000289 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 487213000290 dimer interface [polypeptide binding]; other site 487213000291 conserved gate region; other site 487213000292 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 487213000293 ABC-ATPase subunit interface; other site 487213000294 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 487213000295 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 487213000296 dimer interface [polypeptide binding]; other site 487213000297 conserved gate region; other site 487213000298 putative PBP binding loops; other site 487213000299 ABC-ATPase subunit interface; other site 487213000300 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 487213000301 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 487213000302 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 487213000303 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 487213000304 active site residue [active] 487213000305 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 487213000306 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 487213000307 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213000308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 487213000309 Walker B; other site 487213000310 D-loop; other site 487213000311 H-loop/switch region; other site 487213000312 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 487213000313 Predicted membrane protein [Function unknown]; Region: COG4709 487213000314 Predicted transcriptional regulators [Transcription]; Region: COG1695 487213000315 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 487213000316 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 487213000317 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 487213000318 putative substrate translocation pore; other site 487213000319 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 487213000320 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 487213000321 Ligand binding site; other site 487213000322 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 487213000323 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 487213000324 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 487213000325 NAD(P) binding site [chemical binding]; other site 487213000326 homodimer interface [polypeptide binding]; other site 487213000327 substrate binding site [chemical binding]; other site 487213000328 active site 487213000329 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 487213000330 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 487213000331 motif II; other site 487213000332 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 487213000333 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 487213000334 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 487213000335 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 487213000336 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 487213000337 putative L-serine binding site [chemical binding]; other site 487213000338 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 487213000339 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 487213000340 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; pfam09683 487213000341 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 487213000342 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 487213000343 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 487213000344 Walker A/P-loop; other site 487213000345 ATP binding site [chemical binding]; other site 487213000346 Q-loop/lid; other site 487213000347 ABC transporter signature motif; other site 487213000348 Walker B; other site 487213000349 D-loop; other site 487213000350 H-loop/switch region; other site 487213000351 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 487213000352 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213000353 substrate binding pocket [chemical binding]; other site 487213000354 membrane-bound complex binding site; other site 487213000355 hinge residues; other site 487213000356 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 487213000357 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 487213000358 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 487213000359 non-specific DNA binding site [nucleotide binding]; other site 487213000360 salt bridge; other site 487213000361 sequence-specific DNA binding site [nucleotide binding]; other site 487213000362 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 487213000363 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 487213000364 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213000365 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213000366 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213000367 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213000368 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213000369 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 487213000370 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213000371 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213000372 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 487213000373 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 487213000374 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 487213000375 nudix motif; other site 487213000376 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 487213000377 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 487213000378 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 487213000379 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 487213000380 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 487213000381 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 487213000382 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 487213000383 hypothetical protein; Provisional; Region: PRK13667 487213000384 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 487213000385 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 487213000386 Glycoprotease family; Region: Peptidase_M22; pfam00814 487213000387 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 487213000388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213000389 Coenzyme A binding pocket [chemical binding]; other site 487213000390 UGMP family protein; Validated; Region: PRK09604 487213000391 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 487213000392 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 487213000393 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 487213000394 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 487213000395 active site 487213000396 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213000397 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 487213000398 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 487213000399 Walker A/P-loop; other site 487213000400 ATP binding site [chemical binding]; other site 487213000401 Q-loop/lid; other site 487213000402 ABC transporter signature motif; other site 487213000403 Walker B; other site 487213000404 D-loop; other site 487213000405 H-loop/switch region; other site 487213000406 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 487213000407 non-specific DNA binding site [nucleotide binding]; other site 487213000408 salt bridge; other site 487213000409 sequence-specific DNA binding site [nucleotide binding]; other site 487213000410 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 487213000411 CAAX protease self-immunity; Region: Abi; pfam02517 487213000412 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 487213000413 Predicted membrane protein [Function unknown]; Region: COG4392 487213000414 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213000415 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 487213000416 substrate binding pocket [chemical binding]; other site 487213000417 membrane-bound complex binding site; other site 487213000418 hinge residues; other site 487213000419 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 487213000420 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 487213000421 hypothetical protein; Provisional; Region: PRK06446 487213000422 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 487213000423 metal binding site [ion binding]; metal-binding site 487213000424 dimer interface [polypeptide binding]; other site 487213000425 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 487213000426 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 487213000427 Walker A/P-loop; other site 487213000428 ATP binding site [chemical binding]; other site 487213000429 Q-loop/lid; other site 487213000430 ABC transporter signature motif; other site 487213000431 Walker B; other site 487213000432 D-loop; other site 487213000433 H-loop/switch region; other site 487213000434 NIL domain; Region: NIL; pfam09383 487213000435 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 487213000436 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 487213000437 Predicted integral membrane protein [Function unknown]; Region: COG5578 487213000438 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 487213000439 HAMP domain; Region: HAMP; pfam00672 487213000440 Histidine kinase; Region: His_kinase; pfam06580 487213000441 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 487213000442 ATP binding site [chemical binding]; other site 487213000443 Mg2+ binding site [ion binding]; other site 487213000444 G-X-G motif; other site 487213000445 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 487213000446 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 487213000447 active site 487213000448 phosphorylation site [posttranslational modification] 487213000449 intermolecular recognition site; other site 487213000450 dimerization interface [polypeptide binding]; other site 487213000451 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 487213000452 flavoprotein NrdI; Provisional; Region: PRK02551 487213000453 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213000454 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 487213000455 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 487213000456 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 487213000457 LytTr DNA-binding domain; Region: LytTR; smart00850 487213000458 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 487213000459 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 487213000460 ATP binding site [chemical binding]; other site 487213000461 Mg2+ binding site [ion binding]; other site 487213000462 G-X-G motif; other site 487213000463 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 487213000464 ATP binding site [chemical binding]; other site 487213000465 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 487213000466 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 487213000467 homopentamer interface [polypeptide binding]; other site 487213000468 active site 487213000469 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 487213000470 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 487213000471 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 487213000472 dimerization interface [polypeptide binding]; other site 487213000473 active site 487213000474 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 487213000475 Lumazine binding domain; Region: Lum_binding; pfam00677 487213000476 Lumazine binding domain; Region: Lum_binding; pfam00677 487213000477 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 487213000478 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 487213000479 catalytic motif [active] 487213000480 Zn binding site [ion binding]; other site 487213000481 RibD C-terminal domain; Region: RibD_C; cl17279 487213000482 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 487213000483 RuvA N terminal domain; Region: RuvA_N; pfam01330 487213000484 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 487213000485 CAAX protease self-immunity; Region: Abi; pfam02517 487213000486 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 487213000487 putative dimer interface [polypeptide binding]; other site 487213000488 catalytic triad [active] 487213000489 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 487213000490 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 487213000491 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 487213000492 Cl binding site [ion binding]; other site 487213000493 oligomer interface [polypeptide binding]; other site 487213000494 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 487213000495 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 487213000496 Int/Topo IB signature motif; other site 487213000497 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 487213000498 Divergent AAA domain; Region: AAA_4; pfam04326 487213000499 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 487213000500 Penicillinase repressor; Region: Pencillinase_R; cl17580 487213000501 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 487213000502 non-specific DNA binding site [nucleotide binding]; other site 487213000503 salt bridge; other site 487213000504 sequence-specific DNA binding site [nucleotide binding]; other site 487213000505 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 487213000506 sequence-specific DNA binding site [nucleotide binding]; other site 487213000507 salt bridge; other site 487213000508 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 487213000509 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 487213000510 Preprotein translocase subunit; Region: YajC; cl00806 487213000511 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 487213000512 D5 N terminal like; Region: D5_N; smart00885 487213000513 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 487213000514 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 487213000515 Protein of unknown function (DUF1492); Region: DUF1492; pfam07374 487213000516 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 487213000517 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 487213000518 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 487213000519 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 487213000520 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 487213000521 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 487213000522 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 487213000523 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 487213000524 active site 487213000525 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 487213000526 ArsC family; Region: ArsC; pfam03960 487213000527 putative catalytic residues [active] 487213000528 thiol/disulfide switch; other site 487213000529 hypothetical protein; Provisional; Region: PRK05473 487213000530 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 487213000531 hypothetical protein; Provisional; Region: PRK13678 487213000532 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 487213000533 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 487213000534 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 487213000535 Bacterial lipoprotein; Region: DUF3642; pfam12182 487213000536 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 487213000537 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 487213000538 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 487213000539 putative active site [active] 487213000540 catalytic site [active] 487213000541 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 487213000542 putative active site [active] 487213000543 catalytic site [active] 487213000544 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 487213000545 ATP cone domain; Region: ATP-cone; pfam03477 487213000546 Class III ribonucleotide reductase; Region: RNR_III; cd01675 487213000547 effector binding site; other site 487213000548 active site 487213000549 Zn binding site [ion binding]; other site 487213000550 glycine loop; other site 487213000551 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 487213000552 Predicted acetyltransferase [General function prediction only]; Region: COG3981 487213000553 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213000554 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 487213000555 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 487213000556 FeS/SAM binding site; other site 487213000557 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 487213000558 active site 487213000559 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 487213000560 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 487213000561 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 487213000562 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 487213000563 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 487213000564 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 487213000565 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 487213000566 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 487213000567 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 487213000568 putative translocon binding site; other site 487213000569 protein-rRNA interface [nucleotide binding]; other site 487213000570 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 487213000571 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 487213000572 G-X-X-G motif; other site 487213000573 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 487213000574 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 487213000575 23S rRNA interface [nucleotide binding]; other site 487213000576 5S rRNA interface [nucleotide binding]; other site 487213000577 putative antibiotic binding site [chemical binding]; other site 487213000578 L25 interface [polypeptide binding]; other site 487213000579 L27 interface [polypeptide binding]; other site 487213000580 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 487213000581 23S rRNA interface [nucleotide binding]; other site 487213000582 putative translocon interaction site; other site 487213000583 signal recognition particle (SRP54) interaction site; other site 487213000584 L23 interface [polypeptide binding]; other site 487213000585 trigger factor interaction site; other site 487213000586 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 487213000587 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 487213000588 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 487213000589 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 487213000590 RNA binding site [nucleotide binding]; other site 487213000591 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 487213000592 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 487213000593 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 487213000594 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 487213000595 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 487213000596 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 487213000597 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 487213000598 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 487213000599 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 487213000600 5S rRNA interface [nucleotide binding]; other site 487213000601 L27 interface [polypeptide binding]; other site 487213000602 23S rRNA interface [nucleotide binding]; other site 487213000603 L5 interface [polypeptide binding]; other site 487213000604 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 487213000605 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 487213000606 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 487213000607 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 487213000608 23S rRNA binding site [nucleotide binding]; other site 487213000609 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 487213000610 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 487213000611 SecY translocase; Region: SecY; pfam00344 487213000612 adenylate kinase; Reviewed; Region: adk; PRK00279 487213000613 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 487213000614 AMP-binding site [chemical binding]; other site 487213000615 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 487213000616 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 487213000617 rRNA binding site [nucleotide binding]; other site 487213000618 predicted 30S ribosome binding site; other site 487213000619 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 487213000620 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 487213000621 30S ribosomal protein S13; Region: bact_S13; TIGR03631 487213000622 30S ribosomal protein S11; Validated; Region: PRK05309 487213000623 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 487213000624 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 487213000625 alphaNTD homodimer interface [polypeptide binding]; other site 487213000626 alphaNTD - beta interaction site [polypeptide binding]; other site 487213000627 alphaNTD - beta' interaction site [polypeptide binding]; other site 487213000628 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 487213000629 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 487213000630 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 487213000631 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 487213000632 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 487213000633 catalytic core [active] 487213000634 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 487213000635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213000636 Walker A/P-loop; other site 487213000637 ATP binding site [chemical binding]; other site 487213000638 Q-loop/lid; other site 487213000639 ABC transporter signature motif; other site 487213000640 Walker B; other site 487213000641 D-loop; other site 487213000642 H-loop/switch region; other site 487213000643 TOBE domain; Region: TOBE_2; pfam08402 487213000644 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 487213000645 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 487213000646 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 487213000647 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 487213000648 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 487213000649 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 487213000650 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 487213000651 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 487213000652 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 487213000653 active site 487213000654 methionine cluster; other site 487213000655 phosphorylation site [posttranslational modification] 487213000656 metal binding site [ion binding]; metal-binding site 487213000657 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 487213000658 active site 487213000659 P-loop; other site 487213000660 phosphorylation site [posttranslational modification] 487213000661 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 487213000662 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 487213000663 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 487213000664 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 487213000665 dimer interface [polypeptide binding]; other site 487213000666 active site 487213000667 glycine loop; other site 487213000668 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 487213000669 active site 487213000670 intersubunit interactions; other site 487213000671 catalytic residue [active] 487213000672 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 487213000673 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 487213000674 dimer interface [polypeptide binding]; other site 487213000675 active site 487213000676 metal binding site [ion binding]; metal-binding site 487213000677 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 487213000678 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 487213000679 HIGH motif; other site 487213000680 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 487213000681 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 487213000682 active site 487213000683 KMSKS motif; other site 487213000684 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 487213000685 tRNA binding surface [nucleotide binding]; other site 487213000686 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 487213000687 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 487213000688 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 487213000689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213000690 Coenzyme A binding pocket [chemical binding]; other site 487213000691 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 487213000692 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 487213000693 Walker A motif; other site 487213000694 ATP binding site [chemical binding]; other site 487213000695 Walker B motif; other site 487213000696 arginine finger; other site 487213000697 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 487213000698 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 487213000699 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 487213000700 catalytic residue [active] 487213000701 putative FPP diphosphate binding site; other site 487213000702 putative FPP binding hydrophobic cleft; other site 487213000703 dimer interface [polypeptide binding]; other site 487213000704 putative IPP diphosphate binding site; other site 487213000705 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 487213000706 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 487213000707 RIP metalloprotease RseP; Region: TIGR00054 487213000708 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 487213000709 active site 487213000710 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 487213000711 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 487213000712 putative substrate binding region [chemical binding]; other site 487213000713 prolyl-tRNA synthetase; Provisional; Region: PRK09194 487213000714 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 487213000715 dimer interface [polypeptide binding]; other site 487213000716 motif 1; other site 487213000717 active site 487213000718 motif 2; other site 487213000719 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 487213000720 putative deacylase active site [active] 487213000721 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 487213000722 active site 487213000723 motif 3; other site 487213000724 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 487213000725 anticodon binding site; other site 487213000726 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 487213000727 beta-galactosidase; Region: BGL; TIGR03356 487213000728 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 487213000729 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 487213000730 glutaminase active site [active] 487213000731 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 487213000732 dimer interface [polypeptide binding]; other site 487213000733 active site 487213000734 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 487213000735 dimer interface [polypeptide binding]; other site 487213000736 active site 487213000737 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 487213000738 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 487213000739 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 487213000740 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 487213000741 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 487213000742 carbohydrate binding site [chemical binding]; other site 487213000743 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 487213000744 carbohydrate binding site [chemical binding]; other site 487213000745 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 487213000746 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 487213000747 Ca binding site [ion binding]; other site 487213000748 active site 487213000749 catalytic site [active] 487213000750 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 487213000751 S17 interaction site [polypeptide binding]; other site 487213000752 S8 interaction site; other site 487213000753 16S rRNA interaction site [nucleotide binding]; other site 487213000754 streptomycin interaction site [chemical binding]; other site 487213000755 23S rRNA interaction site [nucleotide binding]; other site 487213000756 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 487213000757 30S ribosomal protein S7; Validated; Region: PRK05302 487213000758 elongation factor G; Reviewed; Region: PRK00007 487213000759 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 487213000760 G1 box; other site 487213000761 putative GEF interaction site [polypeptide binding]; other site 487213000762 GTP/Mg2+ binding site [chemical binding]; other site 487213000763 Switch I region; other site 487213000764 G2 box; other site 487213000765 G3 box; other site 487213000766 Switch II region; other site 487213000767 G4 box; other site 487213000768 G5 box; other site 487213000769 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 487213000770 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 487213000771 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 487213000772 DNA polymerase III PolC; Validated; Region: polC; PRK00448 487213000773 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 487213000774 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 487213000775 generic binding surface II; other site 487213000776 generic binding surface I; other site 487213000777 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 487213000778 active site 487213000779 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 487213000780 active site 487213000781 catalytic site [active] 487213000782 substrate binding site [chemical binding]; other site 487213000783 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 487213000784 putative PHP Thumb interface [polypeptide binding]; other site 487213000785 active site 487213000786 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 487213000787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 487213000788 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 487213000789 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 487213000790 Predicted membrane protein [Function unknown]; Region: COG2261 487213000791 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 487213000792 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 487213000793 RNA binding surface [nucleotide binding]; other site 487213000794 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 487213000795 active site 487213000796 uracil binding [chemical binding]; other site 487213000797 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 487213000798 trimer interface [polypeptide binding]; other site 487213000799 active site 487213000800 G bulge; other site 487213000801 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 487213000802 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 487213000803 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 487213000804 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 487213000805 active pocket/dimerization site; other site 487213000806 active site 487213000807 phosphorylation site [posttranslational modification] 487213000808 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 487213000809 active site 487213000810 phosphorylation site [posttranslational modification] 487213000811 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 487213000812 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 487213000813 NAD binding site [chemical binding]; other site 487213000814 substrate binding site [chemical binding]; other site 487213000815 catalytic Zn binding site [ion binding]; other site 487213000816 tetramer interface [polypeptide binding]; other site 487213000817 structural Zn binding site [ion binding]; other site 487213000818 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 487213000819 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 487213000820 active site 487213000821 motif I; other site 487213000822 motif II; other site 487213000823 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 487213000824 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 487213000825 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 487213000826 dihydropteroate synthase; Region: DHPS; TIGR01496 487213000827 substrate binding pocket [chemical binding]; other site 487213000828 dimer interface [polypeptide binding]; other site 487213000829 inhibitor binding site; inhibition site 487213000830 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 487213000831 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 487213000832 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 487213000833 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 487213000834 homodecamer interface [polypeptide binding]; other site 487213000835 GTP cyclohydrolase I; Provisional; Region: PLN03044 487213000836 active site 487213000837 putative catalytic site residues [active] 487213000838 zinc binding site [ion binding]; other site 487213000839 GTP-CH-I/GFRP interaction surface; other site 487213000840 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 487213000841 homooctamer interface [polypeptide binding]; other site 487213000842 active site 487213000843 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 487213000844 catalytic center binding site [active] 487213000845 ATP binding site [chemical binding]; other site 487213000846 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 487213000847 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 487213000848 23S rRNA interface [nucleotide binding]; other site 487213000849 L3 interface [polypeptide binding]; other site 487213000850 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 487213000851 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 487213000852 active site 487213000853 DNA binding site [nucleotide binding] 487213000854 Int/Topo IB signature motif; other site 487213000855 Helix-turn-helix domain; Region: HTH_17; pfam12728 487213000856 putative replication initiation protein; Region: PHA00330 487213000857 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 487213000858 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 487213000859 active site 487213000860 metal binding site [ion binding]; metal-binding site 487213000861 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 487213000862 active site 487213000863 metal binding site [ion binding]; metal-binding site 487213000864 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 487213000865 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 487213000866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 487213000867 DDE superfamily endonuclease; Region: DDE_3; pfam13358 487213000868 Uncharacterized conserved protein [Function unknown]; Region: COG1359 487213000869 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 487213000870 beta-galactosidase; Region: BGL; TIGR03356 487213000871 Uncharacterized conserved protein [Function unknown]; Region: COG4095 487213000872 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 487213000873 active site 487213000874 P-loop; other site 487213000875 phosphorylation site [posttranslational modification] 487213000876 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 487213000877 HTH domain; Region: HTH_11; pfam08279 487213000878 Mga helix-turn-helix domain; Region: Mga; pfam05043 487213000879 PRD domain; Region: PRD; pfam00874 487213000880 PRD domain; Region: PRD; pfam00874 487213000881 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 487213000882 active site 487213000883 P-loop; other site 487213000884 phosphorylation site [posttranslational modification] 487213000885 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 487213000886 active site 487213000887 phosphorylation site [posttranslational modification] 487213000888 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 487213000889 methionine cluster; other site 487213000890 active site 487213000891 phosphorylation site [posttranslational modification] 487213000892 metal binding site [ion binding]; metal-binding site 487213000893 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 487213000894 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 487213000895 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 487213000896 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 487213000897 putative active site [active] 487213000898 putative catalytic site [active] 487213000899 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 487213000900 catalytic residues [active] 487213000901 dimer interface [polypeptide binding]; other site 487213000902 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 487213000903 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 487213000904 substrate binding site [chemical binding]; other site 487213000905 catalytic residues [active] 487213000906 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 487213000907 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 487213000908 active site 487213000909 intersubunit interface [polypeptide binding]; other site 487213000910 catalytic residue [active] 487213000911 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 487213000912 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 487213000913 substrate binding site [chemical binding]; other site 487213000914 ATP binding site [chemical binding]; other site 487213000915 hypothetical protein; Provisional; Region: PRK09273 487213000916 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 487213000917 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 487213000918 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 487213000919 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 487213000920 NADP binding site [chemical binding]; other site 487213000921 homodimer interface [polypeptide binding]; other site 487213000922 active site 487213000923 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 487213000924 active pocket/dimerization site; other site 487213000925 active site 487213000926 phosphorylation site [posttranslational modification] 487213000927 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 487213000928 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 487213000929 active site 487213000930 phosphorylation site [posttranslational modification] 487213000931 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 487213000932 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 487213000933 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 487213000934 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 487213000935 Transcriptional regulators [Transcription]; Region: PurR; COG1609 487213000936 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213000937 DNA binding site [nucleotide binding] 487213000938 domain linker motif; other site 487213000939 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 487213000940 putative dimerization interface [polypeptide binding]; other site 487213000941 putative ligand binding site [chemical binding]; other site 487213000942 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 487213000943 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 487213000944 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 487213000945 non-specific DNA binding site [nucleotide binding]; other site 487213000946 salt bridge; other site 487213000947 sequence-specific DNA binding site [nucleotide binding]; other site 487213000948 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 487213000949 MraW methylase family; Region: Methyltransf_5; pfam01795 487213000950 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 487213000951 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 487213000952 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 487213000953 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 487213000954 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 487213000955 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 487213000956 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 487213000957 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 487213000958 Mg++ binding site [ion binding]; other site 487213000959 putative catalytic motif [active] 487213000960 putative substrate binding site [chemical binding]; other site 487213000961 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 487213000962 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 487213000963 Walker A motif; other site 487213000964 ATP binding site [chemical binding]; other site 487213000965 Walker B motif; other site 487213000966 arginine finger; other site 487213000967 UvrB/uvrC motif; Region: UVR; pfam02151 487213000968 MoxR-like ATPases [General function prediction only]; Region: COG0714 487213000969 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 487213000970 Walker A motif; other site 487213000971 ATP binding site [chemical binding]; other site 487213000972 Walker B motif; other site 487213000973 arginine finger; other site 487213000974 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 487213000975 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 487213000976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 487213000977 hypothetical protein; Provisional; Region: PRK13663 487213000978 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 487213000979 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 487213000980 Ca binding site [ion binding]; other site 487213000981 active site 487213000982 catalytic site [active] 487213000983 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 487213000984 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 487213000985 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 487213000986 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 487213000987 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 487213000988 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 487213000989 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 487213000990 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 487213000991 Bacterial sugar transferase; Region: Bac_transf; pfam02397 487213000992 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 487213000993 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 487213000994 LicD family; Region: LicD; pfam04991 487213000995 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 487213000996 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 487213000997 active site 487213000998 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 487213000999 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 487213001000 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 487213001001 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 487213001002 active site 487213001003 homodimer interface [polypeptide binding]; other site 487213001004 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 487213001005 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 487213001006 substrate binding site; other site 487213001007 tetramer interface; other site 487213001008 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 487213001009 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 487213001010 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 487213001011 NAD binding site [chemical binding]; other site 487213001012 substrate binding site [chemical binding]; other site 487213001013 homodimer interface [polypeptide binding]; other site 487213001014 active site 487213001015 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 487213001016 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 487213001017 NADP binding site [chemical binding]; other site 487213001018 active site 487213001019 putative substrate binding site [chemical binding]; other site 487213001020 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 487213001021 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 487213001022 peptide binding site [polypeptide binding]; other site 487213001023 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 487213001024 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 487213001025 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 487213001026 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 487213001027 Transglycosylase; Region: Transgly; pfam00912 487213001028 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 487213001029 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 487213001030 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 487213001031 hypothetical protein; Provisional; Region: PRK13660 487213001032 cell division protein GpsB; Provisional; Region: PRK14127 487213001033 DivIVA domain; Region: DivI1A_domain; TIGR03544 487213001034 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 487213001035 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 487213001036 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 487213001037 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 487213001038 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 487213001039 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 487213001040 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213001041 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 487213001042 active site 487213001043 phosphorylation site [posttranslational modification] 487213001044 intermolecular recognition site; other site 487213001045 dimerization interface [polypeptide binding]; other site 487213001046 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 487213001047 DNA binding site [nucleotide binding] 487213001048 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213001049 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213001050 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 487213001051 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 487213001052 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213001053 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 487213001054 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 487213001055 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 487213001056 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 487213001057 diphosphomevalonate decarboxylase; Region: PLN02407 487213001058 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 487213001059 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 487213001060 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 487213001061 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 487213001062 homotetramer interface [polypeptide binding]; other site 487213001063 FMN binding site [chemical binding]; other site 487213001064 homodimer contacts [polypeptide binding]; other site 487213001065 putative active site [active] 487213001066 putative substrate binding site [chemical binding]; other site 487213001067 Predicted membrane protein [Function unknown]; Region: COG4758 487213001068 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 487213001069 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 487213001070 Histidine kinase; Region: HisKA_3; pfam07730 487213001071 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 487213001072 ATP binding site [chemical binding]; other site 487213001073 Mg2+ binding site [ion binding]; other site 487213001074 G-X-G motif; other site 487213001075 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 487213001076 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 487213001077 active site 487213001078 phosphorylation site [posttranslational modification] 487213001079 intermolecular recognition site; other site 487213001080 dimerization interface [polypeptide binding]; other site 487213001081 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 487213001082 DNA binding residues [nucleotide binding] 487213001083 dimerization interface [polypeptide binding]; other site 487213001084 A new structural DNA glycosylase; Region: AlkD_like; cl11434 487213001085 A new structural DNA glycosylase; Region: AlkD_like; cl11434 487213001086 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 487213001087 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 487213001088 DNA binding site [nucleotide binding] 487213001089 Int/Topo IB signature motif; other site 487213001090 active site 487213001091 trigger factor; Provisional; Region: tig; PRK01490 487213001092 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 487213001093 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 487213001094 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 487213001095 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 487213001096 DNA binding site [nucleotide binding] 487213001097 AAA domain; Region: AAA_30; pfam13604 487213001098 Family description; Region: UvrD_C_2; pfam13538 487213001099 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 487213001100 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 487213001101 Catalytic site [active] 487213001102 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 487213001103 ribonuclease HIII; Provisional; Region: PRK00996 487213001104 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 487213001105 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 487213001106 RNA/DNA hybrid binding site [nucleotide binding]; other site 487213001107 active site 487213001108 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 487213001109 Colicin V production protein; Region: Colicin_V; pfam02674 487213001110 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 487213001111 MutS domain III; Region: MutS_III; pfam05192 487213001112 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 487213001113 Walker A/P-loop; other site 487213001114 ATP binding site [chemical binding]; other site 487213001115 Q-loop/lid; other site 487213001116 ABC transporter signature motif; other site 487213001117 Walker B; other site 487213001118 D-loop; other site 487213001119 H-loop/switch region; other site 487213001120 Smr domain; Region: Smr; pfam01713 487213001121 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 487213001122 amino acid carrier protein; Region: agcS; TIGR00835 487213001123 Uncharacterized conserved protein [Function unknown]; Region: COG2128 487213001124 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 487213001125 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 487213001126 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 487213001127 gating phenylalanine in ion channel; other site 487213001128 seryl-tRNA synthetase; Provisional; Region: PRK05431 487213001129 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 487213001130 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 487213001131 dimer interface [polypeptide binding]; other site 487213001132 active site 487213001133 motif 1; other site 487213001134 motif 2; other site 487213001135 motif 3; other site 487213001136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 487213001137 aspartate kinase; Reviewed; Region: PRK09034 487213001138 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 487213001139 putative catalytic residues [active] 487213001140 putative nucleotide binding site [chemical binding]; other site 487213001141 putative aspartate binding site [chemical binding]; other site 487213001142 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 487213001143 allosteric regulatory residue; other site 487213001144 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 487213001145 enoyl-CoA hydratase; Provisional; Region: PRK07260 487213001146 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 487213001147 substrate binding site [chemical binding]; other site 487213001148 oxyanion hole (OAH) forming residues; other site 487213001149 trimer interface [polypeptide binding]; other site 487213001150 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 487213001151 MarR family; Region: MarR_2; pfam12802 487213001152 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 487213001153 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 487213001154 dimer interface [polypeptide binding]; other site 487213001155 active site 487213001156 CoA binding pocket [chemical binding]; other site 487213001157 acyl carrier protein; Provisional; Region: acpP; PRK00982 487213001158 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 487213001159 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 487213001160 FMN binding site [chemical binding]; other site 487213001161 substrate binding site [chemical binding]; other site 487213001162 putative catalytic residue [active] 487213001163 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 487213001164 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 487213001165 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 487213001166 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 487213001167 NAD(P) binding site [chemical binding]; other site 487213001168 homotetramer interface [polypeptide binding]; other site 487213001169 homodimer interface [polypeptide binding]; other site 487213001170 active site 487213001171 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 487213001172 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 487213001173 dimer interface [polypeptide binding]; other site 487213001174 active site 487213001175 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 487213001176 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 487213001177 carboxyltransferase (CT) interaction site; other site 487213001178 biotinylation site [posttranslational modification]; other site 487213001179 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 487213001180 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 487213001181 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 487213001182 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 487213001183 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 487213001184 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 487213001185 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 487213001186 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 487213001187 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 487213001188 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 487213001189 putative RNA binding site [nucleotide binding]; other site 487213001190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 487213001191 elongation factor P; Validated; Region: PRK00529 487213001192 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 487213001193 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 487213001194 RNA binding site [nucleotide binding]; other site 487213001195 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 487213001196 RNA binding site [nucleotide binding]; other site 487213001197 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 487213001198 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 487213001199 putative NAD(P) binding site [chemical binding]; other site 487213001200 catalytic Zn binding site [ion binding]; other site 487213001201 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 487213001202 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 487213001203 GatB domain; Region: GatB_Yqey; pfam02637 487213001204 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 487213001205 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 487213001206 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 487213001207 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 487213001208 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 487213001209 G1 box; other site 487213001210 putative GEF interaction site [polypeptide binding]; other site 487213001211 GTP/Mg2+ binding site [chemical binding]; other site 487213001212 Switch I region; other site 487213001213 G2 box; other site 487213001214 G3 box; other site 487213001215 Switch II region; other site 487213001216 G4 box; other site 487213001217 G5 box; other site 487213001218 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 487213001219 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 487213001220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 487213001221 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 487213001222 DAK2 domain; Region: Dak2; pfam02734 487213001223 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 487213001224 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 487213001225 PYR/PP interface [polypeptide binding]; other site 487213001226 dimer interface [polypeptide binding]; other site 487213001227 TPP binding site [chemical binding]; other site 487213001228 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 487213001229 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 487213001230 TPP-binding site [chemical binding]; other site 487213001231 dimer interface [polypeptide binding]; other site 487213001232 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 487213001233 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 487213001234 putative valine binding site [chemical binding]; other site 487213001235 dimer interface [polypeptide binding]; other site 487213001236 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 487213001237 ketol-acid reductoisomerase; Provisional; Region: PRK05479 487213001238 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 487213001239 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 487213001240 threonine dehydratase; Validated; Region: PRK08639 487213001241 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 487213001242 tetramer interface [polypeptide binding]; other site 487213001243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213001244 catalytic residue [active] 487213001245 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 487213001246 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 487213001247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213001248 Walker A/P-loop; other site 487213001249 ATP binding site [chemical binding]; other site 487213001250 Q-loop/lid; other site 487213001251 ABC transporter signature motif; other site 487213001252 Walker B; other site 487213001253 D-loop; other site 487213001254 H-loop/switch region; other site 487213001255 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 487213001256 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213001257 substrate binding pocket [chemical binding]; other site 487213001258 membrane-bound complex binding site; other site 487213001259 hinge residues; other site 487213001260 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 487213001261 dimer interface [polypeptide binding]; other site 487213001262 conserved gate region; other site 487213001263 putative PBP binding loops; other site 487213001264 ABC-ATPase subunit interface; other site 487213001265 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 487213001266 Transposase; Region: DEDD_Tnp_IS110; pfam01548 487213001267 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 487213001268 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 487213001269 active site 487213001270 DNA polymerase IV; Validated; Region: PRK02406 487213001271 DNA binding site [nucleotide binding] 487213001272 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 487213001273 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 487213001274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 487213001275 Transposase; Region: DDE_Tnp_ISL3; pfam01610 487213001276 Mga helix-turn-helix domain; Region: Mga; pfam05043 487213001277 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 487213001278 Cna protein B-type domain; Region: Cna_B; pfam05738 487213001279 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 487213001280 metal ion-dependent adhesion site (MIDAS); other site 487213001281 Cna protein B-type domain; Region: Cna_B; pfam05738 487213001282 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 487213001283 Cna protein B-type domain; Region: Cna_B; pfam05738 487213001284 Cna protein B-type domain; Region: Cna_B; pfam05738 487213001285 Cna protein B-type domain; Region: Cna_B; pfam05738 487213001286 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 487213001287 active site 487213001288 catalytic site [active] 487213001289 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 487213001290 active site 487213001291 catalytic site [active] 487213001292 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 487213001293 active site 487213001294 catalytic site [active] 487213001295 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 487213001296 Transcriptional regulators [Transcription]; Region: MarR; COG1846 487213001297 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 487213001298 non-specific DNA interactions [nucleotide binding]; other site 487213001299 DNA binding site [nucleotide binding] 487213001300 sequence specific DNA binding site [nucleotide binding]; other site 487213001301 putative cAMP binding site [chemical binding]; other site 487213001302 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 487213001303 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 487213001304 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 487213001305 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 487213001306 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 487213001307 methionine cluster; other site 487213001308 active site 487213001309 phosphorylation site [posttranslational modification] 487213001310 metal binding site [ion binding]; metal-binding site 487213001311 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 487213001312 beta-galactosidase; Region: BGL; TIGR03356 487213001313 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 487213001314 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 487213001315 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 487213001316 active site 487213001317 P-loop; other site 487213001318 phosphorylation site [posttranslational modification] 487213001319 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 487213001320 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 487213001321 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 487213001322 TrkA-N domain; Region: TrkA_N; pfam02254 487213001323 TrkA-C domain; Region: TrkA_C; pfam02080 487213001324 TrkA-N domain; Region: TrkA_N; pfam02254 487213001325 TrkA-C domain; Region: TrkA_C; pfam02080 487213001326 Uncharacterized conserved protein [Function unknown]; Region: COG1912 487213001327 hypothetical protein; Provisional; Region: PRK13661 487213001328 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 487213001329 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 487213001330 Walker A/P-loop; other site 487213001331 ATP binding site [chemical binding]; other site 487213001332 Q-loop/lid; other site 487213001333 ABC transporter signature motif; other site 487213001334 Walker B; other site 487213001335 D-loop; other site 487213001336 H-loop/switch region; other site 487213001337 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 487213001338 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 487213001339 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 487213001340 Walker A/P-loop; other site 487213001341 ATP binding site [chemical binding]; other site 487213001342 Q-loop/lid; other site 487213001343 ABC transporter signature motif; other site 487213001344 Walker B; other site 487213001345 D-loop; other site 487213001346 H-loop/switch region; other site 487213001347 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 487213001348 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 487213001349 Predicted membrane protein [Function unknown]; Region: COG3601 487213001350 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 487213001351 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 487213001352 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 487213001353 active site 487213001354 ParB-like nuclease domain; Region: ParBc; cl02129 487213001355 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213001356 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 487213001357 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 487213001358 CTP synthetase; Validated; Region: pyrG; PRK05380 487213001359 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 487213001360 Catalytic site [active] 487213001361 active site 487213001362 UTP binding site [chemical binding]; other site 487213001363 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 487213001364 active site 487213001365 putative oxyanion hole; other site 487213001366 catalytic triad [active] 487213001367 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 487213001368 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 487213001369 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 487213001370 PhoU domain; Region: PhoU; pfam01895 487213001371 PhoU domain; Region: PhoU; pfam01895 487213001372 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 487213001373 Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with...; Region: GH85_ENGase; cd06547 487213001374 putative active site [active] 487213001375 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 487213001376 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 487213001377 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 487213001378 G5 domain; Region: G5; pfam07501 487213001379 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 487213001380 Phosphoglycerate kinase; Region: PGK; pfam00162 487213001381 substrate binding site [chemical binding]; other site 487213001382 hinge regions; other site 487213001383 ADP binding site [chemical binding]; other site 487213001384 catalytic site [active] 487213001385 Predicted membrane protein [Function unknown]; Region: COG4129 487213001386 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 487213001387 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 487213001388 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 487213001389 DNA binding residues [nucleotide binding] 487213001390 putative dimer interface [polypeptide binding]; other site 487213001391 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 487213001392 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 487213001393 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 487213001394 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 487213001395 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 487213001396 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 487213001397 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 487213001398 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 487213001399 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 487213001400 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 487213001401 HsdM N-terminal domain; Region: HsdM_N; pfam12161 487213001402 Methyltransferase domain; Region: Methyltransf_26; pfam13659 487213001403 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 487213001404 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 487213001405 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 487213001406 ATP binding site [chemical binding]; other site 487213001407 putative Mg++ binding site [ion binding]; other site 487213001408 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 487213001409 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 487213001410 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 487213001411 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 487213001412 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 487213001413 dimer interface [polypeptide binding]; other site 487213001414 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 487213001415 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 487213001416 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 487213001417 nucleotide binding site [chemical binding]; other site 487213001418 NEF interaction site [polypeptide binding]; other site 487213001419 SBD interface [polypeptide binding]; other site 487213001420 chaperone protein DnaJ; Provisional; Region: PRK14276 487213001421 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 487213001422 HSP70 interaction site [polypeptide binding]; other site 487213001423 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 487213001424 substrate binding site [polypeptide binding]; other site 487213001425 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 487213001426 Zn binding sites [ion binding]; other site 487213001427 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 487213001428 substrate binding site [polypeptide binding]; other site 487213001429 dimer interface [polypeptide binding]; other site 487213001430 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 487213001431 HIT family signature motif; other site 487213001432 catalytic residue [active] 487213001433 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 487213001434 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 487213001435 Walker A/P-loop; other site 487213001436 ATP binding site [chemical binding]; other site 487213001437 Q-loop/lid; other site 487213001438 ABC transporter signature motif; other site 487213001439 Walker B; other site 487213001440 D-loop; other site 487213001441 H-loop/switch region; other site 487213001442 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 487213001443 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 487213001444 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213001445 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 487213001446 LytTr DNA-binding domain; Region: LytTR; pfam04397 487213001447 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 487213001448 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 487213001449 active site 487213001450 phosphorylation site [posttranslational modification] 487213001451 intermolecular recognition site; other site 487213001452 dimerization interface [polypeptide binding]; other site 487213001453 LytTr DNA-binding domain; Region: LytTR; pfam04397 487213001454 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 487213001455 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 487213001456 ATP binding site [chemical binding]; other site 487213001457 Mg2+ binding site [ion binding]; other site 487213001458 G-X-G motif; other site 487213001459 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213001460 COMC family; Region: ComC; pfam03047 487213001461 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 487213001462 HlyD family secretion protein; Region: HlyD_3; pfam13437 487213001463 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 487213001464 CAAX protease self-immunity; Region: Abi; pfam02517 487213001465 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 487213001466 CAAX protease self-immunity; Region: Abi; pfam02517 487213001467 CAAX protease self-immunity; Region: Abi; pfam02517 487213001468 Phosphotransferase enzyme family; Region: APH; pfam01636 487213001469 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 487213001470 substrate binding site [chemical binding]; other site 487213001471 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 487213001472 S-adenosylmethionine binding site [chemical binding]; other site 487213001473 ribosome maturation protein RimP; Reviewed; Region: PRK00092 487213001474 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 487213001475 putative oligomer interface [polypeptide binding]; other site 487213001476 putative RNA binding site [nucleotide binding]; other site 487213001477 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 487213001478 NusA N-terminal domain; Region: NusA_N; pfam08529 487213001479 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 487213001480 RNA binding site [nucleotide binding]; other site 487213001481 homodimer interface [polypeptide binding]; other site 487213001482 NusA-like KH domain; Region: KH_5; pfam13184 487213001483 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 487213001484 G-X-X-G motif; other site 487213001485 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 487213001486 putative RNA binding cleft [nucleotide binding]; other site 487213001487 hypothetical protein; Provisional; Region: PRK07283 487213001488 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 487213001489 translation initiation factor IF-2; Region: IF-2; TIGR00487 487213001490 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 487213001491 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 487213001492 G1 box; other site 487213001493 putative GEF interaction site [polypeptide binding]; other site 487213001494 GTP/Mg2+ binding site [chemical binding]; other site 487213001495 Switch I region; other site 487213001496 G2 box; other site 487213001497 G3 box; other site 487213001498 Switch II region; other site 487213001499 G4 box; other site 487213001500 G5 box; other site 487213001501 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 487213001502 Translation-initiation factor 2; Region: IF-2; pfam11987 487213001503 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 487213001504 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 487213001505 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 487213001506 Uncharacterized conserved protein [Function unknown]; Region: COG2461 487213001507 Family of unknown function (DUF438); Region: DUF438; pfam04282 487213001508 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 487213001509 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 487213001510 putative active site [active] 487213001511 heme pocket [chemical binding]; other site 487213001512 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 487213001513 hypothetical protein; Provisional; Region: PRK07758 487213001514 Flavin Reductases; Region: FlaRed; cl00801 487213001515 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 487213001516 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213001517 Coenzyme A binding pocket [chemical binding]; other site 487213001518 AAA domain; Region: AAA_18; pfam13238 487213001519 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 487213001520 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 487213001521 active site 487213001522 HIGH motif; other site 487213001523 nucleotide binding site [chemical binding]; other site 487213001524 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 487213001525 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 487213001526 active site 487213001527 KMSKS motif; other site 487213001528 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 487213001529 tRNA binding surface [nucleotide binding]; other site 487213001530 anticodon binding site; other site 487213001531 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 487213001532 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 487213001533 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 487213001534 cofactor binding site; other site 487213001535 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 487213001536 Fic/DOC family; Region: Fic; pfam02661 487213001537 putative transposase OrfB; Reviewed; Region: PHA02517 487213001538 HTH-like domain; Region: HTH_21; pfam13276 487213001539 Integrase core domain; Region: rve; pfam00665 487213001540 Integrase core domain; Region: rve_2; pfam13333 487213001541 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 487213001542 putative active site [active] 487213001543 catalytic site [active] 487213001544 transcriptional antiterminator BglG; Provisional; Region: PRK09772 487213001545 CAT RNA binding domain; Region: CAT_RBD; smart01061 487213001546 PRD domain; Region: PRD; pfam00874 487213001547 PRD domain; Region: PRD; pfam00874 487213001548 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 487213001549 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 487213001550 active site turn [active] 487213001551 phosphorylation site [posttranslational modification] 487213001552 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 487213001553 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 487213001554 HPr interaction site; other site 487213001555 glycerol kinase (GK) interaction site [polypeptide binding]; other site 487213001556 active site 487213001557 phosphorylation site [posttranslational modification] 487213001558 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 487213001559 beta-galactosidase; Region: BGL; TIGR03356 487213001560 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 487213001561 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 487213001562 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 487213001563 dimer interface [polypeptide binding]; other site 487213001564 motif 1; other site 487213001565 active site 487213001566 motif 2; other site 487213001567 motif 3; other site 487213001568 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 487213001569 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213001570 Coenzyme A binding pocket [chemical binding]; other site 487213001571 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 487213001572 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 487213001573 putative tRNA-binding site [nucleotide binding]; other site 487213001574 B3/4 domain; Region: B3_4; pfam03483 487213001575 tRNA synthetase B5 domain; Region: B5; smart00874 487213001576 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 487213001577 dimer interface [polypeptide binding]; other site 487213001578 motif 1; other site 487213001579 motif 3; other site 487213001580 motif 2; other site 487213001581 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 487213001582 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 487213001583 putative catalytic site [active] 487213001584 putative metal binding site [ion binding]; other site 487213001585 putative phosphate binding site [ion binding]; other site 487213001586 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 487213001587 non-specific DNA binding site [nucleotide binding]; other site 487213001588 salt bridge; other site 487213001589 sequence-specific DNA binding site [nucleotide binding]; other site 487213001590 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 487213001591 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 487213001592 THF binding site; other site 487213001593 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 487213001594 substrate binding site [chemical binding]; other site 487213001595 THF binding site; other site 487213001596 zinc-binding site [ion binding]; other site 487213001597 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 487213001598 FAD binding site [chemical binding]; other site 487213001599 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 487213001600 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 487213001601 RNase E interface [polypeptide binding]; other site 487213001602 trimer interface [polypeptide binding]; other site 487213001603 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 487213001604 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 487213001605 RNase E interface [polypeptide binding]; other site 487213001606 trimer interface [polypeptide binding]; other site 487213001607 active site 487213001608 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 487213001609 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 487213001610 RNA binding site [nucleotide binding]; other site 487213001611 domain interface; other site 487213001612 serine O-acetyltransferase; Region: cysE; TIGR01172 487213001613 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 487213001614 trimer interface [polypeptide binding]; other site 487213001615 active site 487213001616 substrate binding site [chemical binding]; other site 487213001617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213001618 Coenzyme A binding pocket [chemical binding]; other site 487213001619 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213001620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213001621 Coenzyme A binding pocket [chemical binding]; other site 487213001622 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 487213001623 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 487213001624 active site 487213001625 HIGH motif; other site 487213001626 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 487213001627 KMSKS motif; other site 487213001628 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 487213001629 tRNA binding surface [nucleotide binding]; other site 487213001630 anticodon binding site; other site 487213001631 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 487213001632 active site 487213001633 metal binding site [ion binding]; metal-binding site 487213001634 dimerization interface [polypeptide binding]; other site 487213001635 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 487213001636 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 487213001637 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 487213001638 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 487213001639 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 487213001640 FtsX-like permease family; Region: FtsX; pfam02687 487213001641 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 487213001642 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 487213001643 Walker A/P-loop; other site 487213001644 ATP binding site [chemical binding]; other site 487213001645 Q-loop/lid; other site 487213001646 ABC transporter signature motif; other site 487213001647 Walker B; other site 487213001648 D-loop; other site 487213001649 H-loop/switch region; other site 487213001650 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 487213001651 FtsX-like permease family; Region: FtsX; pfam02687 487213001652 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213001653 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 487213001654 active site 487213001655 phosphorylation site [posttranslational modification] 487213001656 intermolecular recognition site; other site 487213001657 dimerization interface [polypeptide binding]; other site 487213001658 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 487213001659 DNA binding site [nucleotide binding] 487213001660 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 487213001661 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 487213001662 dimerization interface [polypeptide binding]; other site 487213001663 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 487213001664 dimer interface [polypeptide binding]; other site 487213001665 phosphorylation site [posttranslational modification] 487213001666 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 487213001667 ATP binding site [chemical binding]; other site 487213001668 Mg2+ binding site [ion binding]; other site 487213001669 G-X-G motif; other site 487213001670 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 487213001671 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 487213001672 intersubunit interface [polypeptide binding]; other site 487213001673 active site 487213001674 zinc binding site [ion binding]; other site 487213001675 Na+ binding site [ion binding]; other site 487213001676 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 487213001677 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 487213001678 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 487213001679 FAD binding pocket [chemical binding]; other site 487213001680 FAD binding motif [chemical binding]; other site 487213001681 phosphate binding motif [ion binding]; other site 487213001682 beta-alpha-beta structure motif; other site 487213001683 NAD binding pocket [chemical binding]; other site 487213001684 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 487213001685 dimer interface [polypeptide binding]; other site 487213001686 conserved gate region; other site 487213001687 putative PBP binding loops; other site 487213001688 ABC-ATPase subunit interface; other site 487213001689 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 487213001690 dimer interface [polypeptide binding]; other site 487213001691 conserved gate region; other site 487213001692 putative PBP binding loops; other site 487213001693 ABC-ATPase subunit interface; other site 487213001694 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed; Region: PRK11917 487213001695 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 487213001696 substrate binding pocket [chemical binding]; other site 487213001697 membrane-bound complex binding site; other site 487213001698 hinge residues; other site 487213001699 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 487213001700 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 487213001701 Walker A/P-loop; other site 487213001702 ATP binding site [chemical binding]; other site 487213001703 Q-loop/lid; other site 487213001704 ABC transporter signature motif; other site 487213001705 Walker B; other site 487213001706 D-loop; other site 487213001707 H-loop/switch region; other site 487213001708 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 487213001709 DHH family; Region: DHH; pfam01368 487213001710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 487213001711 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 487213001712 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 487213001713 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 487213001714 Predicted esterase [General function prediction only]; Region: COG0627 487213001715 S-formylglutathione hydrolase; Region: PLN02442 487213001716 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 487213001717 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 487213001718 FemAB family; Region: FemAB; pfam02388 487213001719 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 487213001720 active site 487213001721 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 487213001722 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 487213001723 GIY-YIG motif/motif A; other site 487213001724 active site 487213001725 catalytic site [active] 487213001726 putative DNA binding site [nucleotide binding]; other site 487213001727 metal binding site [ion binding]; metal-binding site 487213001728 UvrB/uvrC motif; Region: UVR; pfam02151 487213001729 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 487213001730 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 487213001731 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 487213001732 active site 487213001733 metal binding site [ion binding]; metal-binding site 487213001734 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213001735 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 487213001736 substrate binding pocket [chemical binding]; other site 487213001737 membrane-bound complex binding site; other site 487213001738 hinge residues; other site 487213001739 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 487213001740 dimer interface [polypeptide binding]; other site 487213001741 FMN binding site [chemical binding]; other site 487213001742 dipeptidase PepV; Reviewed; Region: PRK07318 487213001743 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 487213001744 active site 487213001745 metal binding site [ion binding]; metal-binding site 487213001746 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 487213001747 putative uracil binding site [chemical binding]; other site 487213001748 putative active site [active] 487213001749 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 487213001750 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 487213001751 active site residue [active] 487213001752 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 487213001753 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 487213001754 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 487213001755 putative oligomer interface [polypeptide binding]; other site 487213001756 putative active site [active] 487213001757 metal binding site [ion binding]; metal-binding site 487213001758 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 487213001759 nucleotide binding site/active site [active] 487213001760 HIT family signature motif; other site 487213001761 catalytic residue [active] 487213001762 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 487213001763 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 487213001764 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 487213001765 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 487213001766 23S rRNA interface [nucleotide binding]; other site 487213001767 L7/L12 interface [polypeptide binding]; other site 487213001768 putative thiostrepton binding site; other site 487213001769 L25 interface [polypeptide binding]; other site 487213001770 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 487213001771 mRNA/rRNA interface [nucleotide binding]; other site 487213001772 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 487213001773 Preprotein binding site; other site 487213001774 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 487213001775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213001776 Walker A/P-loop; other site 487213001777 ATP binding site [chemical binding]; other site 487213001778 Q-loop/lid; other site 487213001779 ABC transporter signature motif; other site 487213001780 Walker B; other site 487213001781 D-loop; other site 487213001782 H-loop/switch region; other site 487213001783 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 487213001784 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 487213001785 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 487213001786 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 487213001787 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 487213001788 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 487213001789 putative active site [active] 487213001790 catalytic triad [active] 487213001791 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 487213001792 PA/protease or protease-like domain interface [polypeptide binding]; other site 487213001793 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 487213001794 catalytic residues [active] 487213001795 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 487213001796 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 487213001797 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 487213001798 active site 487213001799 phosphorylation site [posttranslational modification] 487213001800 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 487213001801 active site 487213001802 P-loop; other site 487213001803 phosphorylation site [posttranslational modification] 487213001804 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 487213001805 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 487213001806 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 487213001807 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 487213001808 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 487213001809 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 487213001810 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 487213001811 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 487213001812 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 487213001813 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 487213001814 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 487213001815 G5 domain; Region: G5; pfam07501 487213001816 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 487213001817 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 487213001818 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 487213001819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 487213001820 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 487213001821 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 487213001822 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 487213001823 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 487213001824 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 487213001825 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 487213001826 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 487213001827 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 487213001828 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 487213001829 catalytic residues [active] 487213001830 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 487213001831 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 487213001832 SelR domain; Region: SelR; pfam01641 487213001833 Response regulator receiver domain; Region: Response_reg; pfam00072 487213001834 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 487213001835 active site 487213001836 phosphorylation site [posttranslational modification] 487213001837 intermolecular recognition site; other site 487213001838 dimerization interface [polypeptide binding]; other site 487213001839 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 487213001840 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 487213001841 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 487213001842 Cache domain; Region: Cache_1; pfam02743 487213001843 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 487213001844 dimerization interface [polypeptide binding]; other site 487213001845 Histidine kinase; Region: His_kinase; pfam06580 487213001846 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 487213001847 ATP binding site [chemical binding]; other site 487213001848 Mg2+ binding site [ion binding]; other site 487213001849 G-X-G motif; other site 487213001850 hypothetical protein; Provisional; Region: PRK13690 487213001851 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 487213001852 Neuroendocrine-specific golgi protein P55 (NESP55); Region: NESP55; pfam06390 487213001853 G5 domain; Region: G5; pfam07501 487213001854 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 487213001855 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 487213001856 aminodeoxychorismate synthase; Provisional; Region: PRK07508 487213001857 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 487213001858 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 487213001859 substrate-cofactor binding pocket; other site 487213001860 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 487213001861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213001862 catalytic residue [active] 487213001863 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 487213001864 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213001865 Excalibur calcium-binding domain; Region: Excalibur; smart00894 487213001866 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 487213001867 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 487213001868 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 487213001869 nucleotide binding site [chemical binding]; other site 487213001870 thymidylate synthase; Reviewed; Region: thyA; PRK01827 487213001871 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 487213001872 dimerization interface [polypeptide binding]; other site 487213001873 active site 487213001874 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 487213001875 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 487213001876 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 487213001877 GTPases [General function prediction only]; Region: HflX; COG2262 487213001878 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 487213001879 HflX GTPase family; Region: HflX; cd01878 487213001880 G1 box; other site 487213001881 GTP/Mg2+ binding site [chemical binding]; other site 487213001882 Switch I region; other site 487213001883 G2 box; other site 487213001884 G3 box; other site 487213001885 Switch II region; other site 487213001886 G4 box; other site 487213001887 G5 box; other site 487213001888 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 487213001889 ribonuclease Z; Region: RNase_Z; TIGR02651 487213001890 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 487213001891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 487213001892 NAD(P) binding site [chemical binding]; other site 487213001893 active site 487213001894 Transcriptional regulator [Transcription]; Region: LysR; COG0583 487213001895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 487213001896 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 487213001897 dimerization interface [polypeptide binding]; other site 487213001898 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 487213001899 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 487213001900 active site residue [active] 487213001901 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 487213001902 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 487213001903 RNA binding surface [nucleotide binding]; other site 487213001904 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 487213001905 active site 487213001906 uracil binding [chemical binding]; other site 487213001907 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 487213001908 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 487213001909 G1 box; other site 487213001910 putative GEF interaction site [polypeptide binding]; other site 487213001911 GTP/Mg2+ binding site [chemical binding]; other site 487213001912 Switch I region; other site 487213001913 G2 box; other site 487213001914 G3 box; other site 487213001915 Switch II region; other site 487213001916 G4 box; other site 487213001917 G5 box; other site 487213001918 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 487213001919 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 487213001920 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 487213001921 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; pfam09683 487213001922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 487213001923 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 487213001924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213001925 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 487213001926 Walker A/P-loop; other site 487213001927 ATP binding site [chemical binding]; other site 487213001928 Q-loop/lid; other site 487213001929 ABC transporter signature motif; other site 487213001930 Walker B; other site 487213001931 D-loop; other site 487213001932 H-loop/switch region; other site 487213001933 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 487213001934 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 487213001935 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 487213001936 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 487213001937 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 487213001938 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 487213001939 homodimer interface [polypeptide binding]; other site 487213001940 active site 487213001941 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 487213001942 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 487213001943 Cell division protein FtsQ; Region: FtsQ; pfam03799 487213001944 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 487213001945 active site 487213001946 dimer interface [polypeptide binding]; other site 487213001947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213001948 active site 487213001949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213001950 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 487213001951 Walker A/P-loop; other site 487213001952 ATP binding site [chemical binding]; other site 487213001953 Q-loop/lid; other site 487213001954 ABC transporter signature motif; other site 487213001955 Walker B; other site 487213001956 D-loop; other site 487213001957 H-loop/switch region; other site 487213001958 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 487213001959 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 487213001960 dimer interface [polypeptide binding]; other site 487213001961 conserved gate region; other site 487213001962 ABC-ATPase subunit interface; other site 487213001963 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 487213001964 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 487213001965 dimer interface [polypeptide binding]; other site 487213001966 conserved gate region; other site 487213001967 putative PBP binding loops; other site 487213001968 ABC-ATPase subunit interface; other site 487213001969 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 487213001970 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 487213001971 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 487213001972 dimer interface [polypeptide binding]; other site 487213001973 putative anticodon binding site; other site 487213001974 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 487213001975 motif 1; other site 487213001976 active site 487213001977 motif 2; other site 487213001978 motif 3; other site 487213001979 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213001980 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 487213001981 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 487213001982 teramer interface [polypeptide binding]; other site 487213001983 active site 487213001984 FMN binding site [chemical binding]; other site 487213001985 catalytic residues [active] 487213001986 Putative transcription activator [Transcription]; Region: TenA; COG0819 487213001987 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 487213001988 substrate binding site [chemical binding]; other site 487213001989 multimerization interface [polypeptide binding]; other site 487213001990 ATP binding site [chemical binding]; other site 487213001991 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 487213001992 thiamine phosphate binding site [chemical binding]; other site 487213001993 active site 487213001994 pyrophosphate binding site [ion binding]; other site 487213001995 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 487213001996 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 487213001997 Walker A/P-loop; other site 487213001998 ATP binding site [chemical binding]; other site 487213001999 ABC transporter; Region: ABC_tran; pfam00005 487213002000 Q-loop/lid; other site 487213002001 ABC transporter signature motif; other site 487213002002 Walker B; other site 487213002003 D-loop; other site 487213002004 H-loop/switch region; other site 487213002005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213002006 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 487213002007 Walker A/P-loop; other site 487213002008 ATP binding site [chemical binding]; other site 487213002009 Q-loop/lid; other site 487213002010 ABC transporter signature motif; other site 487213002011 Walker B; other site 487213002012 D-loop; other site 487213002013 H-loop/switch region; other site 487213002014 Putative transcription activator [Transcription]; Region: TenA; COG0819 487213002015 Predicted membrane protein [Function unknown]; Region: COG4732 487213002016 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 487213002017 substrate binding site [chemical binding]; other site 487213002018 multimerization interface [polypeptide binding]; other site 487213002019 ATP binding site [chemical binding]; other site 487213002020 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 487213002021 thiamine phosphate binding site [chemical binding]; other site 487213002022 active site 487213002023 pyrophosphate binding site [ion binding]; other site 487213002024 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 487213002025 dimer interface [polypeptide binding]; other site 487213002026 substrate binding site [chemical binding]; other site 487213002027 ATP binding site [chemical binding]; other site 487213002028 Predicted transcriptional regulator [Transcription]; Region: COG3682 487213002029 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 487213002030 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 487213002031 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 487213002032 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 487213002033 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 487213002034 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 487213002035 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 487213002036 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 487213002037 PYR/PP interface [polypeptide binding]; other site 487213002038 dimer interface [polypeptide binding]; other site 487213002039 tetramer interface [polypeptide binding]; other site 487213002040 TPP binding site [chemical binding]; other site 487213002041 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 487213002042 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 487213002043 TPP-binding site [chemical binding]; other site 487213002044 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 487213002045 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 487213002046 active site 487213002047 DDE superfamily endonuclease; Region: DDE_3; pfam13358 487213002048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 487213002049 Winged helix-turn helix; Region: HTH_33; pfam13592 487213002050 Homeodomain-like domain; Region: HTH_23; pfam13384 487213002051 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 487213002052 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 487213002053 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 487213002054 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 487213002055 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 487213002056 Na2 binding site [ion binding]; other site 487213002057 putative substrate binding site 1 [chemical binding]; other site 487213002058 Na binding site 1 [ion binding]; other site 487213002059 putative substrate binding site 2 [chemical binding]; other site 487213002060 HI0933-like protein; Region: HI0933_like; pfam03486 487213002061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 487213002062 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 487213002063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 487213002064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 487213002065 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 487213002066 catalytic motif [active] 487213002067 Zn binding site [ion binding]; other site 487213002068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213002069 active site 487213002070 Clp protease; Region: CLP_protease; pfam00574 487213002071 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 487213002072 oligomer interface [polypeptide binding]; other site 487213002073 active site residues [active] 487213002074 hypothetical protein; Provisional; Region: PRK02302 487213002075 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 487213002076 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 487213002077 putative ligand binding site [chemical binding]; other site 487213002078 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 487213002079 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 487213002080 TM-ABC transporter signature motif; other site 487213002081 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 487213002082 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 487213002083 TM-ABC transporter signature motif; other site 487213002084 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 487213002085 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 487213002086 Walker A/P-loop; other site 487213002087 ATP binding site [chemical binding]; other site 487213002088 Q-loop/lid; other site 487213002089 ABC transporter signature motif; other site 487213002090 Walker B; other site 487213002091 D-loop; other site 487213002092 H-loop/switch region; other site 487213002093 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 487213002094 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 487213002095 Walker A/P-loop; other site 487213002096 ATP binding site [chemical binding]; other site 487213002097 Q-loop/lid; other site 487213002098 ABC transporter signature motif; other site 487213002099 Walker B; other site 487213002100 D-loop; other site 487213002101 H-loop/switch region; other site 487213002102 FOG: CBS domain [General function prediction only]; Region: COG0517 487213002103 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 487213002104 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 487213002105 peptide chain release factor 2; Region: prfB; TIGR00020 487213002106 PCRF domain; Region: PCRF; pfam03462 487213002107 RF-1 domain; Region: RF-1; pfam00472 487213002108 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 487213002109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213002110 Walker A/P-loop; other site 487213002111 ATP binding site [chemical binding]; other site 487213002112 Q-loop/lid; other site 487213002113 ABC transporter signature motif; other site 487213002114 Walker B; other site 487213002115 D-loop; other site 487213002116 H-loop/switch region; other site 487213002117 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 487213002118 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 487213002119 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 487213002120 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 487213002121 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 487213002122 active site turn [active] 487213002123 phosphorylation site [posttranslational modification] 487213002124 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 487213002125 HPr interaction site; other site 487213002126 glycerol kinase (GK) interaction site [polypeptide binding]; other site 487213002127 active site 487213002128 phosphorylation site [posttranslational modification] 487213002129 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 487213002130 putative catalytic site [active] 487213002131 putative metal binding site [ion binding]; other site 487213002132 putative phosphate binding site [ion binding]; other site 487213002133 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 487213002134 DEAD-like helicases superfamily; Region: DEXDc; smart00487 487213002135 ATP binding site [chemical binding]; other site 487213002136 Mg++ binding site [ion binding]; other site 487213002137 motif III; other site 487213002138 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 487213002139 nucleotide binding region [chemical binding]; other site 487213002140 ATP-binding site [chemical binding]; other site 487213002141 S-adenosylmethionine synthetase; Validated; Region: PRK05250 487213002142 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 487213002143 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 487213002144 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 487213002145 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 487213002146 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 487213002147 active site 487213002148 FMN binding site [chemical binding]; other site 487213002149 substrate binding site [chemical binding]; other site 487213002150 catalytic residues [active] 487213002151 homodimer interface [polypeptide binding]; other site 487213002152 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 487213002153 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 487213002154 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 487213002155 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 487213002156 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 487213002157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 487213002158 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 487213002159 VanZ like family; Region: VanZ; pfam04892 487213002160 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 487213002161 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213002162 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213002163 ABC transporter; Region: ABC_tran_2; pfam12848 487213002164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213002165 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 487213002166 active site 487213002167 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 487213002168 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 487213002169 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 487213002170 KH domain; Region: KH_4; pfam13083 487213002171 G-X-X-G motif; other site 487213002172 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213002173 Homeodomain-like domain; Region: HTH_23; pfam13384 487213002174 Winged helix-turn helix; Region: HTH_29; pfam13551 487213002175 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 487213002176 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 487213002177 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 487213002178 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 487213002179 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 487213002180 NodB motif; other site 487213002181 active site 487213002182 catalytic site [active] 487213002183 Zn binding site [ion binding]; other site 487213002184 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 487213002185 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 487213002186 active site 487213002187 catalytic tetrad [active] 487213002188 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 487213002189 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 487213002190 dimer interface [polypeptide binding]; other site 487213002191 motif 1; other site 487213002192 active site 487213002193 motif 2; other site 487213002194 motif 3; other site 487213002195 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 487213002196 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 487213002197 DALR anticodon binding domain; Region: DALR_1; pfam05746 487213002198 hypothetical protein; Provisional; Region: PRK02539 487213002199 Predicted flavoprotein [General function prediction only]; Region: COG0431 487213002200 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 487213002201 PAS domain; Region: PAS_10; pfam13596 487213002202 Predicted flavoprotein [General function prediction only]; Region: COG0431 487213002203 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 487213002204 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 487213002205 ApbE family; Region: ApbE; pfam02424 487213002206 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 487213002207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 487213002208 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 487213002209 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 487213002210 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 487213002211 active site 487213002212 multimer interface [polypeptide binding]; other site 487213002213 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 487213002214 predicted active site [active] 487213002215 catalytic triad [active] 487213002216 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 487213002217 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 487213002218 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 487213002219 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 487213002220 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 487213002221 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 487213002222 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 487213002223 DNA binding site [nucleotide binding] 487213002224 active site 487213002225 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 487213002226 putative ArsC-like catalytic residues; other site 487213002227 putative TRX-like catalytic residues [active] 487213002228 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 487213002229 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 487213002230 ABC-ATPase subunit interface; other site 487213002231 putative PBP binding loops; other site 487213002232 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 487213002233 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 487213002234 Walker A/P-loop; other site 487213002235 ATP binding site [chemical binding]; other site 487213002236 Q-loop/lid; other site 487213002237 ABC transporter signature motif; other site 487213002238 Walker B; other site 487213002239 D-loop; other site 487213002240 H-loop/switch region; other site 487213002241 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 487213002242 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 487213002243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 487213002244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 487213002245 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 487213002246 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 487213002247 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 487213002248 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 487213002249 active site 487213002250 catalytic residues [active] 487213002251 metal binding site [ion binding]; metal-binding site 487213002252 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 487213002253 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 487213002254 active site 487213002255 motif I; other site 487213002256 motif II; other site 487213002257 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 487213002258 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 487213002259 active site 487213002260 catalytic triad [active] 487213002261 oxyanion hole [active] 487213002262 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 487213002263 Beta-lactamase; Region: Beta-lactamase; pfam00144 487213002264 EamA-like transporter family; Region: EamA; pfam00892 487213002265 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 487213002266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213002267 DNA-binding site [nucleotide binding]; DNA binding site 487213002268 UTRA domain; Region: UTRA; pfam07702 487213002269 GMP synthase; Reviewed; Region: guaA; PRK00074 487213002270 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 487213002271 AMP/PPi binding site [chemical binding]; other site 487213002272 candidate oxyanion hole; other site 487213002273 catalytic triad [active] 487213002274 potential glutamine specificity residues [chemical binding]; other site 487213002275 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 487213002276 ATP Binding subdomain [chemical binding]; other site 487213002277 Dimerization subdomain; other site 487213002278 Helix-turn-helix domain; Region: HTH_18; pfam12833 487213002279 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 487213002280 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213002281 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213002282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213002283 Walker A/P-loop; other site 487213002284 ATP binding site [chemical binding]; other site 487213002285 Q-loop/lid; other site 487213002286 ABC transporter signature motif; other site 487213002287 Walker B; other site 487213002288 D-loop; other site 487213002289 H-loop/switch region; other site 487213002290 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213002291 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213002292 Walker A/P-loop; other site 487213002293 ATP binding site [chemical binding]; other site 487213002294 Q-loop/lid; other site 487213002295 ABC transporter signature motif; other site 487213002296 Walker B; other site 487213002297 D-loop; other site 487213002298 H-loop/switch region; other site 487213002299 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 487213002300 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 487213002301 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 487213002302 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 487213002303 Walker A/P-loop; other site 487213002304 ATP binding site [chemical binding]; other site 487213002305 Q-loop/lid; other site 487213002306 ABC transporter signature motif; other site 487213002307 Walker B; other site 487213002308 D-loop; other site 487213002309 H-loop/switch region; other site 487213002310 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213002311 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 487213002312 Walker A/P-loop; other site 487213002313 ATP binding site [chemical binding]; other site 487213002314 Q-loop/lid; other site 487213002315 ABC transporter signature motif; other site 487213002316 Walker B; other site 487213002317 D-loop; other site 487213002318 H-loop/switch region; other site 487213002319 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 487213002320 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 487213002321 S-adenosylmethionine binding site [chemical binding]; other site 487213002322 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 487213002323 Peptidase family U32; Region: Peptidase_U32; pfam01136 487213002324 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 487213002325 Peptidase family U32; Region: Peptidase_U32; pfam01136 487213002326 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 487213002327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213002328 ABC transporter; Region: ABC_tran; pfam00005 487213002329 Q-loop/lid; other site 487213002330 ABC transporter signature motif; other site 487213002331 Walker B; other site 487213002332 D-loop; other site 487213002333 H-loop/switch region; other site 487213002334 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 487213002335 non-specific DNA binding site [nucleotide binding]; other site 487213002336 salt bridge; other site 487213002337 sequence-specific DNA binding site [nucleotide binding]; other site 487213002338 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 487213002339 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 487213002340 active site 487213002341 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 487213002342 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 487213002343 homodimer interface [polypeptide binding]; other site 487213002344 NAD binding pocket [chemical binding]; other site 487213002345 ATP binding pocket [chemical binding]; other site 487213002346 Mg binding site [ion binding]; other site 487213002347 active-site loop [active] 487213002348 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213002349 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 487213002350 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213002351 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 487213002352 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213002353 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213002354 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 487213002355 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 487213002356 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 487213002357 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 487213002358 active site 487213002359 trimer interface [polypeptide binding]; other site 487213002360 allosteric site; other site 487213002361 active site lid [active] 487213002362 hexamer (dimer of trimers) interface [polypeptide binding]; other site 487213002363 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 487213002364 HPr kinase/phosphorylase; Provisional; Region: PRK05428 487213002365 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 487213002366 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 487213002367 Hpr binding site; other site 487213002368 active site 487213002369 homohexamer subunit interaction site [polypeptide binding]; other site 487213002370 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 487213002371 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 487213002372 YtxH-like protein; Region: YtxH; pfam12732 487213002373 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 487213002374 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 487213002375 FeS/SAM binding site; other site 487213002376 HemN C-terminal domain; Region: HemN_C; pfam06969 487213002377 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 487213002378 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 487213002379 active site 487213002380 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 487213002381 active site 487213002382 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 487213002383 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 487213002384 active site 487213002385 motif I; other site 487213002386 motif II; other site 487213002387 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 487213002388 Predicted membrane protein [Function unknown]; Region: COG4478 487213002389 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 487213002390 ArsC family; Region: ArsC; pfam03960 487213002391 putative catalytic residues [active] 487213002392 thiol/disulfide switch; other site 487213002393 hypothetical protein; Provisional; Region: PRK04387 487213002394 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 487213002395 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 487213002396 active site 487213002397 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 487213002398 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 487213002399 S-adenosylmethionine binding site [chemical binding]; other site 487213002400 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 487213002401 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 487213002402 phosphate binding protein; Region: ptsS_2; TIGR02136 487213002403 sulfate transport protein; Provisional; Region: cysT; CHL00187 487213002404 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 487213002405 dimer interface [polypeptide binding]; other site 487213002406 conserved gate region; other site 487213002407 putative PBP binding loops; other site 487213002408 ABC-ATPase subunit interface; other site 487213002409 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 487213002410 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 487213002411 dimer interface [polypeptide binding]; other site 487213002412 conserved gate region; other site 487213002413 putative PBP binding loops; other site 487213002414 ABC-ATPase subunit interface; other site 487213002415 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 487213002416 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 487213002417 Walker A/P-loop; other site 487213002418 ATP binding site [chemical binding]; other site 487213002419 Q-loop/lid; other site 487213002420 ABC transporter signature motif; other site 487213002421 Walker B; other site 487213002422 D-loop; other site 487213002423 H-loop/switch region; other site 487213002424 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 487213002425 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 487213002426 Walker A/P-loop; other site 487213002427 ATP binding site [chemical binding]; other site 487213002428 Q-loop/lid; other site 487213002429 ABC transporter signature motif; other site 487213002430 Walker B; other site 487213002431 D-loop; other site 487213002432 H-loop/switch region; other site 487213002433 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 487213002434 PhoU domain; Region: PhoU; pfam01895 487213002435 PhoU domain; Region: PhoU; pfam01895 487213002436 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 487213002437 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213002438 substrate binding pocket [chemical binding]; other site 487213002439 membrane-bound complex binding site; other site 487213002440 hinge residues; other site 487213002441 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 487213002442 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213002443 DNA-binding site [nucleotide binding]; DNA binding site 487213002444 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 487213002445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213002446 homodimer interface [polypeptide binding]; other site 487213002447 catalytic residue [active] 487213002448 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 487213002449 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 487213002450 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 487213002451 FAD binding domain; Region: FAD_binding_4; pfam01565 487213002452 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 487213002453 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 487213002454 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 487213002455 Walker A/P-loop; other site 487213002456 ATP binding site [chemical binding]; other site 487213002457 Q-loop/lid; other site 487213002458 ABC transporter signature motif; other site 487213002459 Walker B; other site 487213002460 D-loop; other site 487213002461 H-loop/switch region; other site 487213002462 TOBE domain; Region: TOBE_2; pfam08402 487213002463 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 487213002464 dimer interface [polypeptide binding]; other site 487213002465 conserved gate region; other site 487213002466 putative PBP binding loops; other site 487213002467 ABC-ATPase subunit interface; other site 487213002468 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 487213002469 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 487213002470 dimer interface [polypeptide binding]; other site 487213002471 conserved gate region; other site 487213002472 putative PBP binding loops; other site 487213002473 ABC-ATPase subunit interface; other site 487213002474 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 487213002475 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 487213002476 Uncharacterized conserved protein [Function unknown]; Region: COG4894 487213002477 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 487213002478 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 487213002479 motif 1; other site 487213002480 active site 487213002481 motif 2; other site 487213002482 motif 3; other site 487213002483 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 487213002484 DHHA1 domain; Region: DHHA1; pfam02272 487213002485 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 487213002486 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 487213002487 active site 487213002488 Na/Ca binding site [ion binding]; other site 487213002489 catalytic site [active] 487213002490 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 487213002491 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 487213002492 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 487213002493 Walker A/P-loop; other site 487213002494 ATP binding site [chemical binding]; other site 487213002495 Q-loop/lid; other site 487213002496 ABC transporter signature motif; other site 487213002497 Walker B; other site 487213002498 D-loop; other site 487213002499 H-loop/switch region; other site 487213002500 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 487213002501 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 487213002502 putative RNA binding site [nucleotide binding]; other site 487213002503 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 487213002504 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 487213002505 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 487213002506 active site 487213002507 catalytic residue [active] 487213002508 dimer interface [polypeptide binding]; other site 487213002509 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 487213002510 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 487213002511 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 487213002512 shikimate binding site; other site 487213002513 NAD(P) binding site [chemical binding]; other site 487213002514 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 487213002515 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 487213002516 active site 487213002517 dimer interface [polypeptide binding]; other site 487213002518 metal binding site [ion binding]; metal-binding site 487213002519 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 487213002520 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 487213002521 Tetramer interface [polypeptide binding]; other site 487213002522 active site 487213002523 FMN-binding site [chemical binding]; other site 487213002524 prephenate dehydrogenase; Validated; Region: PRK06545 487213002525 prephenate dehydrogenase; Validated; Region: PRK08507 487213002526 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 487213002527 hypothetical protein; Provisional; Region: PRK13676 487213002528 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 487213002529 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 487213002530 hinge; other site 487213002531 active site 487213002532 shikimate kinase; Reviewed; Region: aroK; PRK00131 487213002533 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 487213002534 ADP binding site [chemical binding]; other site 487213002535 magnesium binding site [ion binding]; other site 487213002536 putative shikimate binding site; other site 487213002537 prephenate dehydratase; Provisional; Region: PRK11898 487213002538 Prephenate dehydratase; Region: PDT; pfam00800 487213002539 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 487213002540 putative L-Phe binding site [chemical binding]; other site 487213002541 Transcriptional regulator [Transcription]; Region: LytR; COG1316 487213002542 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 487213002543 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 487213002544 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 487213002545 putative ADP-binding pocket [chemical binding]; other site 487213002546 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 487213002547 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 487213002548 active site 487213002549 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 487213002550 adaptor protein; Provisional; Region: PRK02315 487213002551 homoserine kinase; Provisional; Region: PRK01212 487213002552 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 487213002553 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 487213002554 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 487213002555 SelR domain; Region: SelR; pfam01641 487213002556 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213002557 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213002558 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213002559 Walker A/P-loop; other site 487213002560 ATP binding site [chemical binding]; other site 487213002561 Q-loop/lid; other site 487213002562 ABC transporter signature motif; other site 487213002563 Walker B; other site 487213002564 D-loop; other site 487213002565 H-loop/switch region; other site 487213002566 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213002567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213002568 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 487213002569 Walker A/P-loop; other site 487213002570 ATP binding site [chemical binding]; other site 487213002571 Q-loop/lid; other site 487213002572 ABC transporter signature motif; other site 487213002573 Walker B; other site 487213002574 D-loop; other site 487213002575 H-loop/switch region; other site 487213002576 chlorohydrolase; Validated; Region: PRK06687 487213002577 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 487213002578 active site 487213002579 putative substrate binding pocket [chemical binding]; other site 487213002580 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 487213002581 23S rRNA interface [nucleotide binding]; other site 487213002582 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 487213002583 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 487213002584 core dimer interface [polypeptide binding]; other site 487213002585 L10 interface [polypeptide binding]; other site 487213002586 L11 interface [polypeptide binding]; other site 487213002587 putative EF-Tu interaction site [polypeptide binding]; other site 487213002588 putative EF-G interaction site [polypeptide binding]; other site 487213002589 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 487213002590 Walker A motif; other site 487213002591 ATP binding site [chemical binding]; other site 487213002592 Walker B motif; other site 487213002593 glutamate dehydrogenase; Provisional; Region: PRK09414 487213002594 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 487213002595 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 487213002596 NAD(P) binding site [chemical binding]; other site 487213002597 Winged helix-turn helix; Region: HTH_33; pfam13592 487213002598 DDE superfamily endonuclease; Region: DDE_3; pfam13358 487213002599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 487213002600 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 487213002601 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 487213002602 DHH family; Region: DHH; pfam01368 487213002603 flavodoxin; Validated; Region: PRK07308 487213002604 hypothetical protein; Provisional; Region: PRK07248 487213002605 camphor resistance protein CrcB; Provisional; Region: PRK14221 487213002606 camphor resistance protein CrcB; Provisional; Region: PRK14229 487213002607 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 487213002608 SAP domain; Region: SAP; pfam02037 487213002609 sugar phosphate phosphatase; Provisional; Region: PRK10513 487213002610 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 487213002611 active site 487213002612 motif I; other site 487213002613 motif II; other site 487213002614 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 487213002615 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 487213002616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 487213002617 Zn2+ binding site [ion binding]; other site 487213002618 Mg2+ binding site [ion binding]; other site 487213002619 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 487213002620 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 487213002621 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 487213002622 signal recognition particle protein; Provisional; Region: PRK10867 487213002623 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 487213002624 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 487213002625 P loop; other site 487213002626 GTP binding site [chemical binding]; other site 487213002627 Signal peptide binding domain; Region: SRP_SPB; pfam02978 487213002628 uracil transporter; Provisional; Region: PRK10720 487213002629 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 487213002630 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 487213002631 S-adenosylmethionine binding site [chemical binding]; other site 487213002632 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 487213002633 heat shock protein HtpX; Provisional; Region: PRK04897 487213002634 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 487213002635 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213002636 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213002637 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 487213002638 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 487213002639 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 487213002640 minor groove reading motif; other site 487213002641 helix-hairpin-helix signature motif; other site 487213002642 substrate binding pocket [chemical binding]; other site 487213002643 active site 487213002644 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 487213002645 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213002646 active site 487213002647 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 487213002648 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 487213002649 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 487213002650 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 487213002651 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 487213002652 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 487213002653 catalytic site [active] 487213002654 subunit interface [polypeptide binding]; other site 487213002655 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 487213002656 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 487213002657 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 487213002658 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 487213002659 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 487213002660 ATP-grasp domain; Region: ATP-grasp_4; cl17255 487213002661 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 487213002662 IMP binding site; other site 487213002663 dimer interface [polypeptide binding]; other site 487213002664 interdomain contacts; other site 487213002665 partial ornithine binding site; other site 487213002666 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 487213002667 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 487213002668 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 487213002669 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 487213002670 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 487213002671 substrate binding site; other site 487213002672 dimer interface; other site 487213002673 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 487213002674 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 487213002675 putative NAD(P) binding site [chemical binding]; other site 487213002676 putative catalytic Zn binding site [ion binding]; other site 487213002677 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 487213002678 Phosphotransferase enzyme family; Region: APH; pfam01636 487213002679 active site 487213002680 substrate binding site [chemical binding]; other site 487213002681 ATP binding site [chemical binding]; other site 487213002682 dimer interface [polypeptide binding]; other site 487213002683 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 487213002684 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 487213002685 active site 487213002686 metal-binding site 487213002687 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 487213002688 DNA protecting protein DprA; Region: dprA; TIGR00732 487213002689 Predicted membrane protein [Function unknown]; Region: COG1808 487213002690 DNA topoisomerase I; Validated; Region: PRK05582 487213002691 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 487213002692 active site 487213002693 interdomain interaction site; other site 487213002694 putative metal-binding site [ion binding]; other site 487213002695 nucleotide binding site [chemical binding]; other site 487213002696 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 487213002697 domain I; other site 487213002698 DNA binding groove [nucleotide binding] 487213002699 phosphate binding site [ion binding]; other site 487213002700 domain II; other site 487213002701 domain III; other site 487213002702 nucleotide binding site [chemical binding]; other site 487213002703 catalytic site [active] 487213002704 domain IV; other site 487213002705 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 487213002706 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 487213002707 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 487213002708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 487213002709 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 487213002710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 487213002711 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 487213002712 tartrate dehydrogenase; Region: TTC; TIGR02089 487213002713 Predicted membrane protein [Function unknown]; Region: COG3326 487213002714 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 487213002715 substrate binding site [chemical binding]; other site 487213002716 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 487213002717 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 487213002718 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 487213002719 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 487213002720 Walker A motif; other site 487213002721 ATP binding site [chemical binding]; other site 487213002722 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 487213002723 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 487213002724 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 487213002725 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 487213002726 active site 487213002727 ribonuclease III; Reviewed; Region: rnc; PRK00102 487213002728 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 487213002729 dimerization interface [polypeptide binding]; other site 487213002730 active site 487213002731 metal binding site [ion binding]; metal-binding site 487213002732 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 487213002733 dsRNA binding site [nucleotide binding]; other site 487213002734 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 487213002735 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 487213002736 Walker A/P-loop; other site 487213002737 ATP binding site [chemical binding]; other site 487213002738 Q-loop/lid; other site 487213002739 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 487213002740 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 487213002741 ABC transporter signature motif; other site 487213002742 Walker B; other site 487213002743 D-loop; other site 487213002744 H-loop/switch region; other site 487213002745 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 487213002746 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 487213002747 active site 487213002748 motif I; other site 487213002749 motif II; other site 487213002750 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 487213002751 sugar phosphate phosphatase; Provisional; Region: PRK10513 487213002752 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 487213002753 motif II; other site 487213002754 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 487213002755 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 487213002756 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 487213002757 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 487213002758 P loop; other site 487213002759 GTP binding site [chemical binding]; other site 487213002760 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 487213002761 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 487213002762 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 487213002763 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 487213002764 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 487213002765 Walker A/P-loop; other site 487213002766 ATP binding site [chemical binding]; other site 487213002767 Q-loop/lid; other site 487213002768 ABC transporter signature motif; other site 487213002769 Walker B; other site 487213002770 D-loop; other site 487213002771 H-loop/switch region; other site 487213002772 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 487213002773 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213002774 substrate binding pocket [chemical binding]; other site 487213002775 membrane-bound complex binding site; other site 487213002776 hinge residues; other site 487213002777 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 487213002778 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213002779 substrate binding pocket [chemical binding]; other site 487213002780 membrane-bound complex binding site; other site 487213002781 hinge residues; other site 487213002782 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 487213002783 dimer interface [polypeptide binding]; other site 487213002784 conserved gate region; other site 487213002785 putative PBP binding loops; other site 487213002786 ABC-ATPase subunit interface; other site 487213002787 CAAX protease self-immunity; Region: Abi; pfam02517 487213002788 excinuclease ABC subunit B; Provisional; Region: PRK05298 487213002789 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 487213002790 ATP binding site [chemical binding]; other site 487213002791 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 487213002792 nucleotide binding region [chemical binding]; other site 487213002793 ATP-binding site [chemical binding]; other site 487213002794 Ultra-violet resistance protein B; Region: UvrB; pfam12344 487213002795 UvrB/uvrC motif; Region: UVR; pfam02151 487213002796 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 487213002797 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 487213002798 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213002799 Coenzyme A binding pocket [chemical binding]; other site 487213002800 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 487213002801 putative active site [active] 487213002802 nucleotide binding site [chemical binding]; other site 487213002803 nudix motif; other site 487213002804 putative metal binding site [ion binding]; other site 487213002805 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 487213002806 HTH domain; Region: HTH_11; pfam08279 487213002807 3H domain; Region: 3H; pfam02829 487213002808 Predicted membrane protein [Function unknown]; Region: COG4684 487213002809 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 487213002810 Flavoprotein; Region: Flavoprotein; pfam02441 487213002811 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 487213002812 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 487213002813 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 487213002814 Potassium binding sites [ion binding]; other site 487213002815 Cesium cation binding sites [ion binding]; other site 487213002816 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 487213002817 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 487213002818 minor groove reading motif; other site 487213002819 helix-hairpin-helix signature motif; other site 487213002820 substrate binding pocket [chemical binding]; other site 487213002821 active site 487213002822 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 487213002823 DNA binding and oxoG recognition site [nucleotide binding] 487213002824 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213002825 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 487213002826 active site 487213002827 phosphorylation site [posttranslational modification] 487213002828 intermolecular recognition site; other site 487213002829 dimerization interface [polypeptide binding]; other site 487213002830 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 487213002831 DNA binding site [nucleotide binding] 487213002832 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 487213002833 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 487213002834 putative active site [active] 487213002835 heme pocket [chemical binding]; other site 487213002836 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 487213002837 dimer interface [polypeptide binding]; other site 487213002838 phosphorylation site [posttranslational modification] 487213002839 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 487213002840 ATP binding site [chemical binding]; other site 487213002841 Mg2+ binding site [ion binding]; other site 487213002842 G-X-G motif; other site 487213002843 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 487213002844 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 487213002845 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 487213002846 Ion channel; Region: Ion_trans_2; pfam07885 487213002847 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213002848 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 487213002849 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 487213002850 tetramer (dimer of dimers) interface [polypeptide binding]; other site 487213002851 NAD binding site [chemical binding]; other site 487213002852 dimer interface [polypeptide binding]; other site 487213002853 substrate binding site [chemical binding]; other site 487213002854 DNA gyrase subunit A; Validated; Region: PRK05560 487213002855 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 487213002856 CAP-like domain; other site 487213002857 active site 487213002858 primary dimer interface [polypeptide binding]; other site 487213002859 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 487213002860 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 487213002861 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 487213002862 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 487213002863 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 487213002864 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 487213002865 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 487213002866 active site 487213002867 catalytic site [active] 487213002868 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 487213002869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 487213002870 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 487213002871 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 487213002872 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 487213002873 RNA binding site [nucleotide binding]; other site 487213002874 active site 487213002875 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 487213002876 Enterocin A Immunity; Region: EntA_Immun; pfam08951 487213002877 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 487213002878 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 487213002879 Sugar specificity; other site 487213002880 Pyrimidine base specificity; other site 487213002881 ATP-binding site [chemical binding]; other site 487213002882 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 487213002883 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 487213002884 generic binding surface II; other site 487213002885 generic binding surface I; other site 487213002886 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 487213002887 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 487213002888 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 487213002889 substrate binding pocket [chemical binding]; other site 487213002890 chain length determination region; other site 487213002891 substrate-Mg2+ binding site; other site 487213002892 catalytic residues [active] 487213002893 aspartate-rich region 1; other site 487213002894 active site lid residues [active] 487213002895 aspartate-rich region 2; other site 487213002896 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 487213002897 S4 RNA-binding domain; Region: S4; smart00363 487213002898 RNA binding surface [nucleotide binding]; other site 487213002899 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 487213002900 Arginine repressor [Transcription]; Region: ArgR; COG1438 487213002901 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 487213002902 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 487213002903 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 487213002904 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 487213002905 Walker A/P-loop; other site 487213002906 ATP binding site [chemical binding]; other site 487213002907 Q-loop/lid; other site 487213002908 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 487213002909 ABC transporter signature motif; other site 487213002910 Walker B; other site 487213002911 D-loop; other site 487213002912 H-loop/switch region; other site 487213002913 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 487213002914 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 487213002915 active site 487213002916 metal binding site [ion binding]; metal-binding site 487213002917 GTP-binding protein LepA; Provisional; Region: PRK05433 487213002918 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 487213002919 G1 box; other site 487213002920 putative GEF interaction site [polypeptide binding]; other site 487213002921 GTP/Mg2+ binding site [chemical binding]; other site 487213002922 Switch I region; other site 487213002923 G2 box; other site 487213002924 G3 box; other site 487213002925 Switch II region; other site 487213002926 G4 box; other site 487213002927 G5 box; other site 487213002928 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 487213002929 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 487213002930 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 487213002931 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 487213002932 active site 487213002933 phosphorylation site [posttranslational modification] 487213002934 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 487213002935 active site 487213002936 P-loop; other site 487213002937 phosphorylation site [posttranslational modification] 487213002938 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 487213002939 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 487213002940 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 487213002941 active site 487213002942 catalytic residues [active] 487213002943 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 487213002944 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 487213002945 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 487213002946 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 487213002947 putative substrate binding site [chemical binding]; other site 487213002948 putative ATP binding site [chemical binding]; other site 487213002949 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 487213002950 CAT RNA binding domain; Region: CAT_RBD; smart01061 487213002951 transcriptional antiterminator BglG; Provisional; Region: PRK09772 487213002952 PRD domain; Region: PRD; pfam00874 487213002953 PRD domain; Region: PRD; pfam00874 487213002954 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 487213002955 methionine cluster; other site 487213002956 active site 487213002957 phosphorylation site [posttranslational modification] 487213002958 metal binding site [ion binding]; metal-binding site 487213002959 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 487213002960 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 487213002961 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 487213002962 active site 487213002963 P-loop; other site 487213002964 phosphorylation site [posttranslational modification] 487213002965 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 487213002966 beta-galactosidase; Region: BGL; TIGR03356 487213002967 Protein of unknown function (DUF3884); Region: DUF3884; pfam13024 487213002968 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 487213002969 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 487213002970 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 487213002971 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 487213002972 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 487213002973 dimer interface [polypeptide binding]; other site 487213002974 putative radical transfer pathway; other site 487213002975 diiron center [ion binding]; other site 487213002976 tyrosyl radical; other site 487213002977 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 487213002978 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 487213002979 Class I ribonucleotide reductase; Region: RNR_I; cd01679 487213002980 active site 487213002981 dimer interface [polypeptide binding]; other site 487213002982 catalytic residues [active] 487213002983 effector binding site; other site 487213002984 R2 peptide binding site; other site 487213002985 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 487213002986 catalytic residues [active] 487213002987 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 487213002988 dimerization domain swap beta strand [polypeptide binding]; other site 487213002989 regulatory protein interface [polypeptide binding]; other site 487213002990 active site 487213002991 regulatory phosphorylation site [posttranslational modification]; other site 487213002992 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 487213002993 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 487213002994 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 487213002995 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 487213002996 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 487213002997 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213002998 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213002999 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003000 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 487213003001 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003002 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003003 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003004 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003005 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003006 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003007 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003008 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 487213003009 peptidase T; Region: peptidase-T; TIGR01882 487213003010 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 487213003011 metal binding site [ion binding]; metal-binding site 487213003012 dimer interface [polypeptide binding]; other site 487213003013 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 487213003014 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 487213003015 Catalytic site [active] 487213003016 T surface-antigen of pili; Region: FctA; cl16948 487213003017 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 487213003018 active site 487213003019 catalytic site [active] 487213003020 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 487213003021 active site 487213003022 catalytic site [active] 487213003023 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 487213003024 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 487213003025 active site 487213003026 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 487213003027 active site 487213003028 N-terminal domain interface [polypeptide binding]; other site 487213003029 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 487213003030 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 487213003031 Predicted membrane protein [Function unknown]; Region: COG2246 487213003032 GtrA-like protein; Region: GtrA; pfam04138 487213003033 Predicted membrane protein [Function unknown]; Region: COG4708 487213003034 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 487213003035 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 487213003036 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 487213003037 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 487213003038 dimer interface [polypeptide binding]; other site 487213003039 active site 487213003040 catalytic residue [active] 487213003041 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 487213003042 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 487213003043 trmE is a tRNA modification GTPase; Region: trmE; cd04164 487213003044 G1 box; other site 487213003045 GTP/Mg2+ binding site [chemical binding]; other site 487213003046 Switch I region; other site 487213003047 G2 box; other site 487213003048 Switch II region; other site 487213003049 G3 box; other site 487213003050 G4 box; other site 487213003051 G5 box; other site 487213003052 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 487213003053 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 487213003054 active site 1 [active] 487213003055 dimer interface [polypeptide binding]; other site 487213003056 hexamer interface [polypeptide binding]; other site 487213003057 active site 2 [active] 487213003058 thymidine kinase; Provisional; Region: PRK04296 487213003059 peptide chain release factor 1; Validated; Region: prfA; PRK00591 487213003060 This domain is found in peptide chain release factors; Region: PCRF; smart00937 487213003061 RF-1 domain; Region: RF-1; pfam00472 487213003062 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 487213003063 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 487213003064 S-adenosylmethionine binding site [chemical binding]; other site 487213003065 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 487213003066 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 487213003067 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213003068 Coenzyme A binding pocket [chemical binding]; other site 487213003069 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 487213003070 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 487213003071 dimer interface [polypeptide binding]; other site 487213003072 active site 487213003073 glycine-pyridoxal phosphate binding site [chemical binding]; other site 487213003074 folate binding site [chemical binding]; other site 487213003075 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 487213003076 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 487213003077 Lysozyme-like; Region: Lysozyme_like; pfam13702 487213003078 catalytic residue [active] 487213003079 Predicted secreted protein [Function unknown]; Region: COG4086 487213003080 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 487213003081 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 487213003082 TRAM domain; Region: TRAM; cl01282 487213003083 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 487213003084 S-adenosylmethionine binding site [chemical binding]; other site 487213003085 Predicted transcriptional regulator [Transcription]; Region: COG3655 487213003086 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 487213003087 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 487213003088 siderophore binding site; other site 487213003089 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 487213003090 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 487213003091 ABC-ATPase subunit interface; other site 487213003092 dimer interface [polypeptide binding]; other site 487213003093 putative PBP binding regions; other site 487213003094 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 487213003095 ABC-ATPase subunit interface; other site 487213003096 dimer interface [polypeptide binding]; other site 487213003097 putative PBP binding regions; other site 487213003098 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 487213003099 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 487213003100 Walker A/P-loop; other site 487213003101 ATP binding site [chemical binding]; other site 487213003102 Q-loop/lid; other site 487213003103 ABC transporter signature motif; other site 487213003104 Walker B; other site 487213003105 D-loop; other site 487213003106 H-loop/switch region; other site 487213003107 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 487213003108 MobA/MobL family; Region: MobA_MobL; pfam03389 487213003109 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 487213003110 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; cl09889 487213003111 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 487213003112 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 487213003113 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 487213003114 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 487213003115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213003116 Coenzyme A binding pocket [chemical binding]; other site 487213003117 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 487213003118 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 487213003119 conserved cys residue [active] 487213003120 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 487213003121 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 487213003122 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 487213003123 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 487213003124 T-box leader; cis-reg00001 487213003125 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 487213003126 zinc binding site [ion binding]; other site 487213003127 putative ligand binding site [chemical binding]; other site 487213003128 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 487213003129 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 487213003130 TM-ABC transporter signature motif; other site 487213003131 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 487213003132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213003133 Walker A/P-loop; other site 487213003134 ATP binding site [chemical binding]; other site 487213003135 Q-loop/lid; other site 487213003136 ABC transporter signature motif; other site 487213003137 Walker B; other site 487213003138 D-loop; other site 487213003139 H-loop/switch region; other site 487213003140 DNA primase; Validated; Region: dnaG; PRK05667 487213003141 CHC2 zinc finger; Region: zf-CHC2; pfam01807 487213003142 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 487213003143 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 487213003144 active site 487213003145 metal binding site [ion binding]; metal-binding site 487213003146 interdomain interaction site; other site 487213003147 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 487213003148 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 487213003149 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 487213003150 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 487213003151 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 487213003152 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 487213003153 DNA binding residues [nucleotide binding] 487213003154 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 487213003155 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 487213003156 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 487213003157 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 487213003158 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 487213003159 putative ADP-binding pocket [chemical binding]; other site 487213003160 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 487213003161 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 487213003162 GTPase CgtA; Reviewed; Region: obgE; PRK12297 487213003163 GTP1/OBG; Region: GTP1_OBG; pfam01018 487213003164 Obg GTPase; Region: Obg; cd01898 487213003165 G1 box; other site 487213003166 GTP/Mg2+ binding site [chemical binding]; other site 487213003167 Switch I region; other site 487213003168 G2 box; other site 487213003169 G3 box; other site 487213003170 Switch II region; other site 487213003171 G4 box; other site 487213003172 G5 box; other site 487213003173 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 487213003174 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 487213003175 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 487213003176 hinge; other site 487213003177 active site 487213003178 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213003179 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 487213003180 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 487213003181 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213003182 DNA-binding site [nucleotide binding]; DNA binding site 487213003183 DRTGG domain; Region: DRTGG; pfam07085 487213003184 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 487213003185 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 487213003186 active site 2 [active] 487213003187 active site 1 [active] 487213003188 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 487213003189 active site 487213003190 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 487213003191 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 487213003192 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 487213003193 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 487213003194 Part of AAA domain; Region: AAA_19; pfam13245 487213003195 Family description; Region: UvrD_C_2; pfam13538 487213003196 hypothetical protein; Reviewed; Region: PRK00024 487213003197 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 487213003198 MPN+ (JAMM) motif; other site 487213003199 Zinc-binding site [ion binding]; other site 487213003200 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 487213003201 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 487213003202 catalytic triad [active] 487213003203 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 487213003204 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 487213003205 CoA binding domain; Region: CoA_binding; pfam02629 487213003206 Putative amino acid metabolism; Region: DUF1831; pfam08866 487213003207 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 487213003208 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 487213003209 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 487213003210 catalytic residue [active] 487213003211 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 487213003212 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 487213003213 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213003214 active site 487213003215 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 487213003216 putative active site [active] 487213003217 putative metal binding residues [ion binding]; other site 487213003218 signature motif; other site 487213003219 putative triphosphate binding site [ion binding]; other site 487213003220 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 487213003221 synthetase active site [active] 487213003222 NTP binding site [chemical binding]; other site 487213003223 metal binding site [ion binding]; metal-binding site 487213003224 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 487213003225 ATP-NAD kinase; Region: NAD_kinase; pfam01513 487213003226 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 487213003227 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 487213003228 RNA binding surface [nucleotide binding]; other site 487213003229 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 487213003230 active site 487213003231 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 487213003232 hypothetical protein; Validated; Region: PRK00153 487213003233 Predicted membrane protein [Function unknown]; Region: COG3619 487213003234 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 487213003235 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 487213003236 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 487213003237 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 487213003238 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 487213003239 active site 487213003240 Riboflavin kinase; Region: Flavokinase; smart00904 487213003241 Uncharacterized conserved protein [Function unknown]; Region: COG1284 487213003242 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 487213003243 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 487213003244 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 487213003245 EDD domain protein, DegV family; Region: DegV; TIGR00762 487213003246 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 487213003247 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 487213003248 IHF dimer interface [polypeptide binding]; other site 487213003249 IHF - DNA interface [nucleotide binding]; other site 487213003250 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 487213003251 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213003252 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213003253 ABC transporter; Region: ABC_tran_2; pfam12848 487213003254 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213003255 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 487213003256 non-specific DNA binding site [nucleotide binding]; other site 487213003257 salt bridge; other site 487213003258 sequence-specific DNA binding site [nucleotide binding]; other site 487213003259 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 487213003260 H+ Antiporter protein; Region: 2A0121; TIGR00900 487213003261 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 487213003262 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 487213003263 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 487213003264 nucleotide binding pocket [chemical binding]; other site 487213003265 K-X-D-G motif; other site 487213003266 catalytic site [active] 487213003267 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 487213003268 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 487213003269 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 487213003270 Dimer interface [polypeptide binding]; other site 487213003271 BRCT sequence motif; other site 487213003272 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 487213003273 pullulanase, type I; Region: pulA_typeI; TIGR02104 487213003274 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 487213003275 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 487213003276 Ca binding site [ion binding]; other site 487213003277 active site 487213003278 catalytic site [active] 487213003279 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 487213003280 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 487213003281 tetrameric interface [polypeptide binding]; other site 487213003282 activator binding site; other site 487213003283 NADP binding site [chemical binding]; other site 487213003284 substrate binding site [chemical binding]; other site 487213003285 catalytic residues [active] 487213003286 glycogen branching enzyme; Provisional; Region: PRK12313 487213003287 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 487213003288 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 487213003289 active site 487213003290 catalytic site [active] 487213003291 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 487213003292 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 487213003293 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 487213003294 ligand binding site; other site 487213003295 oligomer interface; other site 487213003296 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 487213003297 dimer interface [polypeptide binding]; other site 487213003298 N-terminal domain interface [polypeptide binding]; other site 487213003299 sulfate 1 binding site; other site 487213003300 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 487213003301 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 487213003302 active site 487213003303 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 487213003304 dimer interface [polypeptide binding]; other site 487213003305 N-terminal domain interface [polypeptide binding]; other site 487213003306 sulfate 1 binding site; other site 487213003307 glycogen synthase; Provisional; Region: glgA; PRK00654 487213003308 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 487213003309 ADP-binding pocket [chemical binding]; other site 487213003310 homodimer interface [polypeptide binding]; other site 487213003311 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 487213003312 Uncharacterized conserved protein [Function unknown]; Region: COG5506 487213003313 enolase; Provisional; Region: eno; PRK00077 487213003314 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 487213003315 dimer interface [polypeptide binding]; other site 487213003316 metal binding site [ion binding]; metal-binding site 487213003317 substrate binding pocket [chemical binding]; other site 487213003318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 487213003319 DDE superfamily endonuclease; Region: DDE_3; pfam13358 487213003320 Helix-turn-helix domain; Region: HTH_28; pfam13518 487213003321 Winged helix-turn helix; Region: HTH_29; pfam13551 487213003322 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 487213003323 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 487213003324 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 487213003325 Part of AAA domain; Region: AAA_19; pfam13245 487213003326 Family description; Region: UvrD_C_2; pfam13538 487213003327 Family description; Region: UvrD_C_2; pfam13538 487213003328 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 487213003329 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 487213003330 G5 domain; Region: G5; pfam07501 487213003331 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 487213003332 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 487213003333 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 487213003334 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 487213003335 GTP/Mg2+ binding site [chemical binding]; other site 487213003336 G4 box; other site 487213003337 G5 box; other site 487213003338 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 487213003339 G1 box; other site 487213003340 G1 box; other site 487213003341 GTP/Mg2+ binding site [chemical binding]; other site 487213003342 Switch I region; other site 487213003343 G2 box; other site 487213003344 G2 box; other site 487213003345 G3 box; other site 487213003346 G3 box; other site 487213003347 Switch II region; other site 487213003348 Switch II region; other site 487213003349 G5 box; other site 487213003350 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 487213003351 RNA/DNA hybrid binding site [nucleotide binding]; other site 487213003352 active site 487213003353 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 487213003354 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 487213003355 Cl- selectivity filter; other site 487213003356 Cl- binding residues [ion binding]; other site 487213003357 pore gating glutamate residue; other site 487213003358 dimer interface [polypeptide binding]; other site 487213003359 H+/Cl- coupling transport residue; other site 487213003360 TrkA-C domain; Region: TrkA_C; pfam02080 487213003361 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 487213003362 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 487213003363 active site 487213003364 DNA binding site [nucleotide binding] 487213003365 Int/Topo IB signature motif; other site 487213003366 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 487213003367 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 487213003368 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 487213003369 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 487213003370 E3 interaction surface; other site 487213003371 lipoyl attachment site [posttranslational modification]; other site 487213003372 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 487213003373 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 487213003374 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 487213003375 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 487213003376 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 487213003377 e3 binding domain; Region: E3_binding; pfam02817 487213003378 e3 binding domain; Region: E3_binding; pfam02817 487213003379 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 487213003380 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 487213003381 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 487213003382 alpha subunit interface [polypeptide binding]; other site 487213003383 TPP binding site [chemical binding]; other site 487213003384 heterodimer interface [polypeptide binding]; other site 487213003385 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 487213003386 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 487213003387 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 487213003388 tetramer interface [polypeptide binding]; other site 487213003389 TPP-binding site [chemical binding]; other site 487213003390 heterodimer interface [polypeptide binding]; other site 487213003391 phosphorylation loop region [posttranslational modification] 487213003392 multidrug efflux protein; Reviewed; Region: PRK01766 487213003393 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 487213003394 cation binding site [ion binding]; other site 487213003395 dihydroorotase; Validated; Region: pyrC; PRK09357 487213003396 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 487213003397 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 487213003398 active site 487213003399 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 487213003400 putative active site [active] 487213003401 nucleotide binding site [chemical binding]; other site 487213003402 nudix motif; other site 487213003403 putative metal binding site [ion binding]; other site 487213003404 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 487213003405 ligand binding site [chemical binding]; other site 487213003406 active site 487213003407 UGI interface [polypeptide binding]; other site 487213003408 catalytic site [active] 487213003409 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 487213003410 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 487213003411 motif II; other site 487213003412 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 487213003413 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 487213003414 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003415 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003416 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 487213003417 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 487213003418 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 487213003419 metal binding site [ion binding]; metal-binding site 487213003420 amino acid transporter; Region: 2A0306; TIGR00909 487213003421 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 487213003422 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 487213003423 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 487213003424 catalytic residues [active] 487213003425 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 487213003426 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 487213003427 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cl17045 487213003428 dimer interface [polypeptide binding]; other site 487213003429 Helix-turn-helix domain; Region: HTH_28; pfam13518 487213003430 Winged helix-turn helix; Region: HTH_29; pfam13551 487213003431 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 487213003432 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 487213003433 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 487213003434 putative active site [active] 487213003435 catalytic site [active] 487213003436 putative metal binding site [ion binding]; other site 487213003437 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 487213003438 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 487213003439 active site 487213003440 catalytic site [active] 487213003441 substrate binding site [chemical binding]; other site 487213003442 MarR family; Region: MarR_2; cl17246 487213003443 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 487213003444 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 487213003445 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 487213003446 dimer interface [polypeptide binding]; other site 487213003447 ADP-ribose binding site [chemical binding]; other site 487213003448 active site 487213003449 nudix motif; other site 487213003450 metal binding site [ion binding]; metal-binding site 487213003451 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 487213003452 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 487213003453 Substrate binding site; other site 487213003454 Mg++ binding site; other site 487213003455 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 487213003456 active site 487213003457 substrate binding site [chemical binding]; other site 487213003458 CoA binding site [chemical binding]; other site 487213003459 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 487213003460 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 487213003461 active site 487213003462 Predicted membrane protein [Function unknown]; Region: COG2035 487213003463 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 487213003464 putative deacylase active site [active] 487213003465 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 487213003466 catalytic core [active] 487213003467 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 487213003468 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 487213003469 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 487213003470 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 487213003471 S-adenosylmethionine binding site [chemical binding]; other site 487213003472 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 487213003473 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 487213003474 active site 487213003475 Zn binding site [ion binding]; other site 487213003476 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 487213003477 tellurite resistance protein TehB; Provisional; Region: PRK12335 487213003478 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 487213003479 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 487213003480 S-adenosylmethionine binding site [chemical binding]; other site 487213003481 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 487213003482 SmpB-tmRNA interface; other site 487213003483 ribonuclease R; Region: RNase_R; TIGR02063 487213003484 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 487213003485 RNB domain; Region: RNB; pfam00773 487213003486 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 487213003487 RNA binding site [nucleotide binding]; other site 487213003488 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 487213003489 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 487213003490 drug efflux system protein MdtG; Provisional; Region: PRK09874 487213003491 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 487213003492 putative substrate translocation pore; other site 487213003493 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 487213003494 dephospho-CoA kinase; Region: TIGR00152 487213003495 CoA-binding site [chemical binding]; other site 487213003496 ATP-binding [chemical binding]; other site 487213003497 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 487213003498 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 487213003499 DNA binding site [nucleotide binding] 487213003500 catalytic residue [active] 487213003501 H2TH interface [polypeptide binding]; other site 487213003502 putative catalytic residues [active] 487213003503 turnover-facilitating residue; other site 487213003504 intercalation triad [nucleotide binding]; other site 487213003505 8OG recognition residue [nucleotide binding]; other site 487213003506 putative reading head residues; other site 487213003507 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 487213003508 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 487213003509 GTPase Era; Reviewed; Region: era; PRK00089 487213003510 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 487213003511 G1 box; other site 487213003512 GTP/Mg2+ binding site [chemical binding]; other site 487213003513 Switch I region; other site 487213003514 G2 box; other site 487213003515 Switch II region; other site 487213003516 G3 box; other site 487213003517 G4 box; other site 487213003518 G5 box; other site 487213003519 KH domain; Region: KH_2; pfam07650 487213003520 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 487213003521 metal-binding heat shock protein; Provisional; Region: PRK00016 487213003522 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 487213003523 Domain of unknown function (DUF814); Region: DUF814; pfam05670 487213003524 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213003525 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 487213003526 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 487213003527 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 487213003528 heterodimer interface [polypeptide binding]; other site 487213003529 active site 487213003530 FMN binding site [chemical binding]; other site 487213003531 homodimer interface [polypeptide binding]; other site 487213003532 substrate binding site [chemical binding]; other site 487213003533 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 487213003534 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 487213003535 FAD binding pocket [chemical binding]; other site 487213003536 FAD binding motif [chemical binding]; other site 487213003537 phosphate binding motif [ion binding]; other site 487213003538 beta-alpha-beta structure motif; other site 487213003539 NAD binding pocket [chemical binding]; other site 487213003540 Iron coordination center [ion binding]; other site 487213003541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 487213003542 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 487213003543 dimer interface [polypeptide binding]; other site 487213003544 active site 487213003545 metal binding site [ion binding]; metal-binding site 487213003546 glutathione binding site [chemical binding]; other site 487213003547 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 487213003548 23S rRNA binding site [nucleotide binding]; other site 487213003549 L21 binding site [polypeptide binding]; other site 487213003550 L13 binding site [polypeptide binding]; other site 487213003551 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 487213003552 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 487213003553 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 487213003554 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 487213003555 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 487213003556 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 487213003557 Walker A/P-loop; other site 487213003558 ATP binding site [chemical binding]; other site 487213003559 Q-loop/lid; other site 487213003560 ABC transporter signature motif; other site 487213003561 Walker B; other site 487213003562 D-loop; other site 487213003563 H-loop/switch region; other site 487213003564 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 487213003565 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 487213003566 Competence protein; Region: Competence; pfam03772 487213003567 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 487213003568 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 487213003569 SLBB domain; Region: SLBB; pfam10531 487213003570 comEA protein; Region: comE; TIGR01259 487213003571 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 487213003572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213003573 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 487213003574 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 487213003575 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213003576 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213003577 Coenzyme A binding pocket [chemical binding]; other site 487213003578 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 487213003579 PhoH-like protein; Region: PhoH; pfam02562 487213003580 hypothetical protein; Provisional; Region: PRK13672 487213003581 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 487213003582 S1 domain; Region: S1_2; pfam13509 487213003583 ribosome recycling factor; Reviewed; Region: frr; PRK00083 487213003584 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 487213003585 hinge region; other site 487213003586 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 487213003587 putative nucleotide binding site [chemical binding]; other site 487213003588 uridine monophosphate binding site [chemical binding]; other site 487213003589 homohexameric interface [polypeptide binding]; other site 487213003590 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 487213003591 Glucose inhibited division protein A; Region: GIDA; pfam01134 487213003592 Predicted methyltransferases [General function prediction only]; Region: COG0313 487213003593 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 487213003594 putative SAM binding site [chemical binding]; other site 487213003595 putative homodimer interface [polypeptide binding]; other site 487213003596 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 487213003597 DNA polymerase III subunit delta'; Validated; Region: PRK07276 487213003598 DNA polymerase III subunit delta'; Validated; Region: PRK08485 487213003599 thymidylate kinase; Validated; Region: tmk; PRK00698 487213003600 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 487213003601 TMP-binding site; other site 487213003602 ATP-binding site [chemical binding]; other site 487213003603 pyrroline-5-carboxylate reductase; Region: PLN02688 487213003604 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 487213003605 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 487213003606 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 487213003607 putative catalytic cysteine [active] 487213003608 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 487213003609 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 487213003610 nucleotide binding site [chemical binding]; other site 487213003611 homotetrameric interface [polypeptide binding]; other site 487213003612 putative phosphate binding site [ion binding]; other site 487213003613 putative allosteric binding site; other site 487213003614 PUA domain; Region: PUA; pfam01472 487213003615 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 487213003616 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 487213003617 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213003618 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 487213003619 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 487213003620 RNA binding surface [nucleotide binding]; other site 487213003621 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 487213003622 active site 487213003623 lipoprotein signal peptidase; Provisional; Region: PRK14797 487213003624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 487213003625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 487213003626 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 487213003627 dimerization interface [polypeptide binding]; other site 487213003628 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 487213003629 CAAX protease self-immunity; Region: Abi; pfam02517 487213003630 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 487213003631 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 487213003632 active site 487213003633 motif I; other site 487213003634 motif II; other site 487213003635 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 487213003636 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 487213003637 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 487213003638 putative active site; other site 487213003639 catalytic triad [active] 487213003640 putative dimer interface [polypeptide binding]; other site 487213003641 agmatine deiminase; Provisional; Region: PRK13551 487213003642 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 487213003643 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 487213003644 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 487213003645 dimer interface [polypeptide binding]; other site 487213003646 active site 487213003647 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 487213003648 catalytic residues [active] 487213003649 substrate binding site [chemical binding]; other site 487213003650 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 487213003651 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 487213003652 spermidine synthase; Provisional; Region: PRK00811 487213003653 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 487213003654 S-adenosylmethionine binding site [chemical binding]; other site 487213003655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 487213003656 Transposase; Region: DEDD_Tnp_IS110; pfam01548 487213003657 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 487213003658 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 487213003659 homodimer interface [polypeptide binding]; other site 487213003660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213003661 catalytic residue [active] 487213003662 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 487213003663 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 487213003664 Helix-turn-helix domain; Region: HTH_38; pfam13936 487213003665 Integrase core domain; Region: rve; pfam00665 487213003666 CCC1-related family of proteins; Region: CCC1_like; cl00278 487213003667 FtsX-like permease family; Region: FtsX; pfam02687 487213003668 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 487213003669 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 487213003670 Walker A/P-loop; other site 487213003671 ATP binding site [chemical binding]; other site 487213003672 Q-loop/lid; other site 487213003673 ABC transporter signature motif; other site 487213003674 Walker B; other site 487213003675 D-loop; other site 487213003676 H-loop/switch region; other site 487213003677 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 487213003678 SprT homologues; Region: SprT; cl01182 487213003679 hypothetical protein; Provisional; Region: PRK04351 487213003680 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 487213003681 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 487213003682 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 487213003683 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 487213003684 RNA binding site [nucleotide binding]; other site 487213003685 Predicted permeases [General function prediction only]; Region: COG0701 487213003686 Predicted membrane protein [Function unknown]; Region: COG3689 487213003687 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 487213003688 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 487213003689 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213003690 pyruvate kinase; Provisional; Region: PRK05826 487213003691 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 487213003692 domain interfaces; other site 487213003693 active site 487213003694 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 487213003695 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 487213003696 active site 487213003697 ADP/pyrophosphate binding site [chemical binding]; other site 487213003698 dimerization interface [polypeptide binding]; other site 487213003699 allosteric effector site; other site 487213003700 fructose-1,6-bisphosphate binding site; other site 487213003701 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 487213003702 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 487213003703 active site 487213003704 PHP Thumb interface [polypeptide binding]; other site 487213003705 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 487213003706 generic binding surface II; other site 487213003707 generic binding surface I; other site 487213003708 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 487213003709 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 487213003710 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 487213003711 Arginine repressor [Transcription]; Region: ArgR; COG1438 487213003712 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 487213003713 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 487213003714 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 487213003715 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 487213003716 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 487213003717 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 487213003718 ATP binding site [chemical binding]; other site 487213003719 putative Mg++ binding site [ion binding]; other site 487213003720 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; cl17351 487213003721 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 487213003722 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 487213003723 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 487213003724 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 487213003725 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 487213003726 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 487213003727 active site 487213003728 catalytic residues [active] 487213003729 DNA binding site [nucleotide binding] 487213003730 Int/Topo IB signature motif; other site 487213003731 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 487213003732 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 487213003733 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 487213003734 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 487213003735 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 487213003736 HsdM N-terminal domain; Region: HsdM_N; pfam12161 487213003737 Methyltransferase domain; Region: Methyltransf_26; pfam13659 487213003738 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 487213003739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 487213003740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 487213003741 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 487213003742 Putative esterase; Region: Esterase; pfam00756 487213003743 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 487213003744 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 487213003745 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 487213003746 Ligand Binding Site [chemical binding]; other site 487213003747 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 487213003748 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 487213003749 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 487213003750 catalytic residue [active] 487213003751 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 487213003752 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 487213003753 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 487213003754 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 487213003755 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 487213003756 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 487213003757 active site 487213003758 phosphorylation site [posttranslational modification] 487213003759 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 487213003760 active site 487213003761 P-loop; other site 487213003762 phosphorylation site [posttranslational modification] 487213003763 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 487213003764 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 487213003765 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 487213003766 putative substrate binding site [chemical binding]; other site 487213003767 putative ATP binding site [chemical binding]; other site 487213003768 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 487213003769 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 487213003770 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 487213003771 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 487213003772 Domain of unknown function DUF20; Region: UPF0118; pfam01594 487213003773 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 487213003774 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 487213003775 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 487213003776 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 487213003777 FeS assembly protein SufB; Region: sufB; TIGR01980 487213003778 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 487213003779 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 487213003780 trimerization site [polypeptide binding]; other site 487213003781 active site 487213003782 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 487213003783 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 487213003784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 487213003785 catalytic residue [active] 487213003786 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 487213003787 FeS assembly protein SufD; Region: sufD; TIGR01981 487213003788 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 487213003789 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 487213003790 Walker A/P-loop; other site 487213003791 ATP binding site [chemical binding]; other site 487213003792 Q-loop/lid; other site 487213003793 ABC transporter signature motif; other site 487213003794 Walker B; other site 487213003795 D-loop; other site 487213003796 H-loop/switch region; other site 487213003797 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 487213003798 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 487213003799 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 487213003800 Walker A motif; other site 487213003801 ATP binding site [chemical binding]; other site 487213003802 Walker B motif; other site 487213003803 arginine finger; other site 487213003804 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 487213003805 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 487213003806 GAF domain; Region: GAF_2; pfam13185 487213003807 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 487213003808 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 487213003809 RNA binding site [nucleotide binding]; other site 487213003810 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 487213003811 RNA binding site [nucleotide binding]; other site 487213003812 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 487213003813 RNA binding site [nucleotide binding]; other site 487213003814 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 487213003815 RNA binding site [nucleotide binding]; other site 487213003816 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 487213003817 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 487213003818 putative substrate binding pocket [chemical binding]; other site 487213003819 AC domain interface; other site 487213003820 catalytic triad [active] 487213003821 AB domain interface; other site 487213003822 interchain disulfide; other site 487213003823 Predicted membrane protein [Function unknown]; Region: COG3817 487213003824 Protein of unknown function (DUF979); Region: DUF979; pfam06166 487213003825 Predicted membrane protein [Function unknown]; Region: COG3819 487213003826 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 487213003827 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 487213003828 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 487213003829 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 487213003830 homodimer interface [polypeptide binding]; other site 487213003831 substrate-cofactor binding pocket; other site 487213003832 catalytic residue [active] 487213003833 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 487213003834 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 487213003835 CAP-like domain; other site 487213003836 active site 487213003837 primary dimer interface [polypeptide binding]; other site 487213003838 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 487213003839 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 487213003840 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 487213003841 Mg2+ binding site [ion binding]; other site 487213003842 G-X-G motif; other site 487213003843 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 487213003844 anchoring element; other site 487213003845 dimer interface [polypeptide binding]; other site 487213003846 ATP binding site [chemical binding]; other site 487213003847 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 487213003848 active site 487213003849 putative metal-binding site [ion binding]; other site 487213003850 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 487213003851 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 487213003852 putative transposase OrfB; Reviewed; Region: PHA02517 487213003853 HTH-like domain; Region: HTH_21; pfam13276 487213003854 Integrase core domain; Region: rve; pfam00665 487213003855 Integrase core domain; Region: rve_2; pfam13333 487213003856 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 487213003857 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 487213003858 TM-ABC transporter signature motif; other site 487213003859 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 487213003860 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 487213003861 TM-ABC transporter signature motif; other site 487213003862 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 487213003863 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 487213003864 Walker A/P-loop; other site 487213003865 ATP binding site [chemical binding]; other site 487213003866 Q-loop/lid; other site 487213003867 ABC transporter signature motif; other site 487213003868 Walker B; other site 487213003869 D-loop; other site 487213003870 H-loop/switch region; other site 487213003871 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 487213003872 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 487213003873 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 487213003874 ligand binding site [chemical binding]; other site 487213003875 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 487213003876 active site 487213003877 catalytic motif [active] 487213003878 Zn binding site [ion binding]; other site 487213003879 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 487213003880 intersubunit interface [polypeptide binding]; other site 487213003881 active site 487213003882 catalytic residue [active] 487213003883 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 487213003884 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 487213003885 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 487213003886 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 487213003887 Methyltransferase domain; Region: Methyltransf_31; pfam13847 487213003888 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 487213003889 S-adenosylmethionine binding site [chemical binding]; other site 487213003890 pantothenate kinase; Provisional; Region: PRK05439 487213003891 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 487213003892 ATP-binding site [chemical binding]; other site 487213003893 CoA-binding site [chemical binding]; other site 487213003894 Mg2+-binding site [ion binding]; other site 487213003895 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 487213003896 topology modulation protein; Provisional; Region: PRK07261 487213003897 AAA domain; Region: AAA_17; pfam13207 487213003898 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 487213003899 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 487213003900 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 487213003901 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 487213003902 nucleophilic elbow; other site 487213003903 catalytic triad; other site 487213003904 purine nucleoside phosphorylase; Provisional; Region: PRK08202 487213003905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 487213003906 phosphopentomutase; Provisional; Region: PRK05362 487213003907 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 487213003908 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 487213003909 tetramer (dimer of dimers) interface [polypeptide binding]; other site 487213003910 active site 487213003911 dimer interface [polypeptide binding]; other site 487213003912 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 487213003913 putative substrate binding site [chemical binding]; other site 487213003914 putative ATP binding site [chemical binding]; other site 487213003915 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 487213003916 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 487213003917 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 487213003918 homodimer interface [polypeptide binding]; other site 487213003919 NADP binding site [chemical binding]; other site 487213003920 substrate binding site [chemical binding]; other site 487213003921 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 487213003922 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 487213003923 Walker A/P-loop; other site 487213003924 ATP binding site [chemical binding]; other site 487213003925 Q-loop/lid; other site 487213003926 ABC transporter signature motif; other site 487213003927 Walker B; other site 487213003928 D-loop; other site 487213003929 H-loop/switch region; other site 487213003930 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 487213003931 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 487213003932 dimer interface [polypeptide binding]; other site 487213003933 conserved gate region; other site 487213003934 putative PBP binding loops; other site 487213003935 ABC-ATPase subunit interface; other site 487213003936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 487213003937 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 487213003938 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 487213003939 Walker A motif; other site 487213003940 ATP binding site [chemical binding]; other site 487213003941 Walker B motif; other site 487213003942 arginine finger; other site 487213003943 UvrB/uvrC motif; Region: UVR; pfam02151 487213003944 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 487213003945 Walker A motif; other site 487213003946 ATP binding site [chemical binding]; other site 487213003947 Walker B motif; other site 487213003948 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 487213003949 Helix-turn-helix domain; Region: HTH_28; pfam13518 487213003950 Winged helix-turn helix; Region: HTH_29; pfam13551 487213003951 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 487213003952 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 487213003953 putative transposase OrfB; Reviewed; Region: PHA02517 487213003954 HTH-like domain; Region: HTH_21; pfam13276 487213003955 Integrase core domain; Region: rve; pfam00665 487213003956 Integrase core domain; Region: rve_2; pfam13333 487213003957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 487213003958 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 487213003959 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 487213003960 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 487213003961 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 487213003962 Mg2+ binding site [ion binding]; other site 487213003963 G-X-G motif; other site 487213003964 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 487213003965 anchoring element; other site 487213003966 dimer interface [polypeptide binding]; other site 487213003967 ATP binding site [chemical binding]; other site 487213003968 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 487213003969 active site 487213003970 putative metal-binding site [ion binding]; other site 487213003971 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 487213003972 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 487213003973 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 487213003974 motif II; other site 487213003975 DJ-1 family protein; Region: not_thiJ; TIGR01383 487213003976 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 487213003977 conserved cys residue [active] 487213003978 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 487213003979 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 487213003980 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 487213003981 active site 487213003982 catalytic site [active] 487213003983 substrate binding site [chemical binding]; other site 487213003984 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 487213003985 ATP binding site [chemical binding]; other site 487213003986 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 487213003987 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 487213003988 Peptidase family U32; Region: Peptidase_U32; pfam01136 487213003989 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 487213003990 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 487213003991 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 487213003992 dimer interface [polypeptide binding]; other site 487213003993 phosphorylation site [posttranslational modification] 487213003994 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 487213003995 ATP binding site [chemical binding]; other site 487213003996 Mg2+ binding site [ion binding]; other site 487213003997 G-X-G motif; other site 487213003998 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213003999 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 487213004000 active site 487213004001 phosphorylation site [posttranslational modification] 487213004002 intermolecular recognition site; other site 487213004003 dimerization interface [polypeptide binding]; other site 487213004004 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 487213004005 DNA binding site [nucleotide binding] 487213004006 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 487213004007 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 487213004008 Zn binding site [ion binding]; other site 487213004009 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 487213004010 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 487213004011 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 487213004012 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 487213004013 nudix motif; other site 487213004014 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 487213004015 classical (c) SDRs; Region: SDR_c; cd05233 487213004016 NAD(P) binding site [chemical binding]; other site 487213004017 active site 487213004018 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 487213004019 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 487213004020 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 487213004021 active site 487213004022 catalytic tetrad [active] 487213004023 Predicted transcriptional regulators [Transcription]; Region: COG1695 487213004024 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 487213004025 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 487213004026 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 487213004027 active site 487213004028 HIGH motif; other site 487213004029 KMSKS motif; other site 487213004030 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 487213004031 tRNA binding surface [nucleotide binding]; other site 487213004032 anticodon binding site; other site 487213004033 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 487213004034 dimer interface [polypeptide binding]; other site 487213004035 putative tRNA-binding site [nucleotide binding]; other site 487213004036 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 487213004037 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 487213004038 FtsX-like permease family; Region: FtsX; pfam02687 487213004039 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 487213004040 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 487213004041 Walker A/P-loop; other site 487213004042 ATP binding site [chemical binding]; other site 487213004043 Q-loop/lid; other site 487213004044 ABC transporter signature motif; other site 487213004045 Walker B; other site 487213004046 D-loop; other site 487213004047 H-loop/switch region; other site 487213004048 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 487213004049 HlyD family secretion protein; Region: HlyD_3; pfam13437 487213004050 glutathione reductase; Validated; Region: PRK06116 487213004051 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 487213004052 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 487213004053 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 487213004054 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 487213004055 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 487213004056 ATP cone domain; Region: ATP-cone; pfam03477 487213004057 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 487213004058 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 487213004059 RimM N-terminal domain; Region: RimM; pfam01782 487213004060 PRC-barrel domain; Region: PRC; pfam05239 487213004061 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 487213004062 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213004063 elongation factor Tu; Reviewed; Region: PRK00049 487213004064 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 487213004065 G1 box; other site 487213004066 GEF interaction site [polypeptide binding]; other site 487213004067 GTP/Mg2+ binding site [chemical binding]; other site 487213004068 Switch I region; other site 487213004069 G2 box; other site 487213004070 G3 box; other site 487213004071 Switch II region; other site 487213004072 G4 box; other site 487213004073 G5 box; other site 487213004074 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 487213004075 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 487213004076 Antibiotic Binding Site [chemical binding]; other site 487213004077 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 487213004078 amphipathic channel; other site 487213004079 Asn-Pro-Ala signature motifs; other site 487213004080 MucBP domain; Region: MucBP; pfam06458 487213004081 DDE superfamily endonuclease; Region: DDE_3; pfam13358 487213004082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 487213004083 Transposase; Region: HTH_Tnp_IS630; pfam01710 487213004084 Helix-turn-helix domain; Region: HTH_28; pfam13518 487213004085 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 487213004086 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 487213004087 active site 487213004088 substrate binding site [chemical binding]; other site 487213004089 metal binding site [ion binding]; metal-binding site 487213004090 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 487213004091 catalytic residues [active] 487213004092 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 487213004093 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 487213004094 substrate binding pocket [chemical binding]; other site 487213004095 membrane-bound complex binding site; other site 487213004096 hinge residues; other site 487213004097 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 487213004098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213004099 Walker A/P-loop; other site 487213004100 ATP binding site [chemical binding]; other site 487213004101 Q-loop/lid; other site 487213004102 ABC transporter signature motif; other site 487213004103 Walker B; other site 487213004104 D-loop; other site 487213004105 H-loop/switch region; other site 487213004106 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 487213004107 dimer interface [polypeptide binding]; other site 487213004108 conserved gate region; other site 487213004109 putative PBP binding loops; other site 487213004110 ABC-ATPase subunit interface; other site 487213004111 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 487213004112 TPR motif; other site 487213004113 binding surface 487213004114 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 487213004115 binding surface 487213004116 TPR motif; other site 487213004117 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 487213004118 Domain of unknown function DUF20; Region: UPF0118; pfam01594 487213004119 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 487213004120 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 487213004121 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 487213004122 gamma subunit interface [polypeptide binding]; other site 487213004123 epsilon subunit interface [polypeptide binding]; other site 487213004124 LBP interface [polypeptide binding]; other site 487213004125 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 487213004126 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 487213004127 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 487213004128 alpha subunit interaction interface [polypeptide binding]; other site 487213004129 Walker A motif; other site 487213004130 ATP binding site [chemical binding]; other site 487213004131 Walker B motif; other site 487213004132 inhibitor binding site; inhibition site 487213004133 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 487213004134 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 487213004135 core domain interface [polypeptide binding]; other site 487213004136 delta subunit interface [polypeptide binding]; other site 487213004137 epsilon subunit interface [polypeptide binding]; other site 487213004138 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 487213004139 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 487213004140 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 487213004141 beta subunit interaction interface [polypeptide binding]; other site 487213004142 Walker A motif; other site 487213004143 ATP binding site [chemical binding]; other site 487213004144 Walker B motif; other site 487213004145 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 487213004146 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 487213004147 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 487213004148 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 487213004149 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 487213004150 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 487213004151 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 487213004152 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 487213004153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213004154 Coenzyme A binding pocket [chemical binding]; other site 487213004155 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 487213004156 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 487213004157 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 487213004158 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 487213004159 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 487213004160 dimerization interface [polypeptide binding]; other site 487213004161 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 487213004162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213004163 Coenzyme A binding pocket [chemical binding]; other site 487213004164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213004165 Coenzyme A binding pocket [chemical binding]; other site 487213004166 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 487213004167 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 487213004168 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 487213004169 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 487213004170 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 487213004171 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 487213004172 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 487213004173 ATP binding site [chemical binding]; other site 487213004174 putative Mg++ binding site [ion binding]; other site 487213004175 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 487213004176 nucleotide binding region [chemical binding]; other site 487213004177 ATP-binding site [chemical binding]; other site 487213004178 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 487213004179 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 487213004180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213004181 homodimer interface [polypeptide binding]; other site 487213004182 catalytic residue [active] 487213004183 cystathionine gamma-synthase; Reviewed; Region: PRK07269 487213004184 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 487213004185 homodimer interface [polypeptide binding]; other site 487213004186 substrate-cofactor binding pocket; other site 487213004187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213004188 catalytic residue [active] 487213004189 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 487213004190 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 487213004191 peptide binding site [polypeptide binding]; other site 487213004192 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 487213004193 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 487213004194 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 487213004195 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 487213004196 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 487213004197 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 487213004198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 487213004199 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 487213004200 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 487213004201 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 487213004202 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 487213004203 DHH family; Region: DHH; pfam01368 487213004204 DHHA2 domain; Region: DHHA2; pfam02833 487213004205 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 487213004206 GIY-YIG motif/motif A; other site 487213004207 putative active site [active] 487213004208 putative metal binding site [ion binding]; other site 487213004209 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 487213004210 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 487213004211 S-adenosylmethionine binding site [chemical binding]; other site 487213004212 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 487213004213 hypothetical protein; Provisional; Region: PRK07252 487213004214 RNA binding site [nucleotide binding]; other site 487213004215 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 487213004216 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 487213004217 active site 487213004218 motif I; other site 487213004219 motif II; other site 487213004220 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 487213004221 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 487213004222 active site 487213004223 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 487213004224 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 487213004225 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 487213004226 dimer interface [polypeptide binding]; other site 487213004227 ssDNA binding site [nucleotide binding]; other site 487213004228 tetramer (dimer of dimers) interface [polypeptide binding]; other site 487213004229 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 487213004230 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 487213004231 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 487213004232 putative dimer interface [polypeptide binding]; other site 487213004233 putative anticodon binding site; other site 487213004234 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 487213004235 homodimer interface [polypeptide binding]; other site 487213004236 motif 1; other site 487213004237 motif 2; other site 487213004238 active site 487213004239 motif 3; other site 487213004240 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 487213004241 active site 487213004242 aspartate aminotransferase; Provisional; Region: PRK05764 487213004243 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 487213004244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213004245 homodimer interface [polypeptide binding]; other site 487213004246 catalytic residue [active] 487213004247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 487213004248 Predicted flavoprotein [General function prediction only]; Region: COG0431 487213004249 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 487213004250 G5 domain; Region: G5; pfam07501 487213004251 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004252 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 487213004253 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004254 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004255 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004256 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004257 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004258 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004259 Streptococcal surface-anchored protein repeat, S. criceti family; Region: RPT_S_cricet; TIGR04203 487213004260 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 487213004261 Mga helix-turn-helix domain; Region: Mga; pfam05043 487213004262 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 487213004263 hypothetical protein; Validated; Region: PRK02101 487213004264 Protein of unknown function (DUF3953); Region: DUF3953; pfam13129 487213004265 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 487213004266 active site 487213004267 catalytic residues [active] 487213004268 metal binding site [ion binding]; metal-binding site 487213004269 putative S-transferase; Provisional; Region: PRK11752 487213004270 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 487213004271 C-terminal domain interface [polypeptide binding]; other site 487213004272 GSH binding site (G-site) [chemical binding]; other site 487213004273 dimer interface [polypeptide binding]; other site 487213004274 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 487213004275 N-terminal domain interface [polypeptide binding]; other site 487213004276 dimer interface [polypeptide binding]; other site 487213004277 substrate binding pocket (H-site) [chemical binding]; other site 487213004278 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 487213004279 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 487213004280 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 487213004281 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 487213004282 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 487213004283 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 487213004284 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 487213004285 Cation efflux family; Region: Cation_efflux; pfam01545 487213004286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 487213004287 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 487213004288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213004289 Walker A/P-loop; other site 487213004290 ATP binding site [chemical binding]; other site 487213004291 Q-loop/lid; other site 487213004292 ABC transporter signature motif; other site 487213004293 Walker B; other site 487213004294 D-loop; other site 487213004295 H-loop/switch region; other site 487213004296 ABC transporter; Region: ABC_tran_2; pfam12848 487213004297 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213004298 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 487213004299 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 487213004300 active site 487213004301 NTP binding site [chemical binding]; other site 487213004302 metal binding triad [ion binding]; metal-binding site 487213004303 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 487213004304 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 487213004305 dihydrodipicolinate reductase; Provisional; Region: PRK00048 487213004306 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 487213004307 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 487213004308 EDD domain protein, DegV family; Region: DegV; TIGR00762 487213004309 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 487213004310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 487213004311 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 487213004312 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 487213004313 active site 487213004314 substrate binding site [chemical binding]; other site 487213004315 metal binding site [ion binding]; metal-binding site 487213004316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 487213004317 YbbR-like protein; Region: YbbR; pfam07949 487213004318 Uncharacterized conserved protein [Function unknown]; Region: COG1624 487213004319 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 487213004320 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 487213004321 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 487213004322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 487213004323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 487213004324 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 487213004325 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 487213004326 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 487213004327 dimer interface [polypeptide binding]; other site 487213004328 phosphate binding site [ion binding]; other site 487213004329 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 487213004330 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 487213004331 homotrimer interaction site [polypeptide binding]; other site 487213004332 putative active site [active] 487213004333 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 487213004334 G1 box; other site 487213004335 GTP/Mg2+ binding site [chemical binding]; other site 487213004336 Switch I region; other site 487213004337 G2 box; other site 487213004338 G3 box; other site 487213004339 Switch II region; other site 487213004340 G4 box; other site 487213004341 G5 box; other site 487213004342 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 487213004343 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 487213004344 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 487213004345 Walker A motif; other site 487213004346 ATP binding site [chemical binding]; other site 487213004347 Walker B motif; other site 487213004348 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 487213004349 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 487213004350 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 487213004351 folate binding site [chemical binding]; other site 487213004352 NADP+ binding site [chemical binding]; other site 487213004353 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 487213004354 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 487213004355 dimerization interface [polypeptide binding]; other site 487213004356 DPS ferroxidase diiron center [ion binding]; other site 487213004357 ion pore; other site 487213004358 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213004359 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 487213004360 active site 487213004361 triosephosphate isomerase; Provisional; Region: PRK14567 487213004362 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 487213004363 substrate binding site [chemical binding]; other site 487213004364 dimer interface [polypeptide binding]; other site 487213004365 catalytic triad [active] 487213004366 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 487213004367 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 487213004368 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 487213004369 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 487213004370 proposed active site lysine [active] 487213004371 conserved cys residue [active] 487213004372 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213004373 active site 487213004374 Methyltransferase domain; Region: Methyltransf_31; pfam13847 487213004375 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 487213004376 S-adenosylmethionine binding site [chemical binding]; other site 487213004377 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 487213004378 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 487213004379 Walker A/P-loop; other site 487213004380 ATP binding site [chemical binding]; other site 487213004381 Q-loop/lid; other site 487213004382 ABC transporter signature motif; other site 487213004383 Walker B; other site 487213004384 D-loop; other site 487213004385 H-loop/switch region; other site 487213004386 TOBE domain; Region: TOBE_2; pfam08402 487213004387 Isochorismatase family; Region: Isochorismatase; pfam00857 487213004388 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 487213004389 catalytic triad [active] 487213004390 conserved cis-peptide bond; other site 487213004391 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 487213004392 CodY GAF-like domain; Region: CodY; pfam06018 487213004393 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 487213004394 putative DNA binding site [nucleotide binding]; other site 487213004395 putative Zn2+ binding site [ion binding]; other site 487213004396 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 487213004397 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 487213004398 ATP binding site [chemical binding]; other site 487213004399 Mg++ binding site [ion binding]; other site 487213004400 motif III; other site 487213004401 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 487213004402 nucleotide binding region [chemical binding]; other site 487213004403 ATP-binding site [chemical binding]; other site 487213004404 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 487213004405 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 487213004406 putative substrate translocation pore; other site 487213004407 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 487213004408 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 487213004409 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 487213004410 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 487213004411 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 487213004412 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 487213004413 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 487213004414 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 487213004415 catalytic triad [active] 487213004416 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 487213004417 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 487213004418 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 487213004419 active site 487213004420 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 487213004421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 487213004422 Integrase core domain; Region: rve; pfam00665 487213004423 Integrase core domain; Region: rve_2; pfam13333 487213004424 HTH-like domain; Region: HTH_21; pfam13276 487213004425 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 487213004426 Helix-turn-helix domain; Region: HTH_28; pfam13518 487213004427 Predicted membrane protein [Function unknown]; Region: COG4720 487213004428 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 487213004429 dimer interface [polypeptide binding]; other site 487213004430 substrate binding site [chemical binding]; other site 487213004431 ATP binding site [chemical binding]; other site 487213004432 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 487213004433 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 487213004434 dimerization interface 3.5A [polypeptide binding]; other site 487213004435 active site 487213004436 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 487213004437 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 487213004438 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 487213004439 PhnA protein; Region: PhnA; pfam03831 487213004440 cytidylate kinase; Provisional; Region: cmk; PRK00023 487213004441 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 487213004442 CMP-binding site; other site 487213004443 The sites determining sugar specificity; other site 487213004444 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 487213004445 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 487213004446 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 487213004447 Ligand binding site; other site 487213004448 Putative Catalytic site; other site 487213004449 DXD motif; other site 487213004450 UDP-glucose 4-epimerase; Region: PLN02240 487213004451 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 487213004452 NAD binding site [chemical binding]; other site 487213004453 homodimer interface [polypeptide binding]; other site 487213004454 active site 487213004455 substrate binding site [chemical binding]; other site 487213004456 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 487213004457 Uncharacterized conserved protein [Function unknown]; Region: COG0327 487213004458 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 487213004459 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 487213004460 Family of unknown function (DUF633); Region: DUF633; pfam04816 487213004461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 487213004462 Helix-turn-helix domain; Region: HTH_28; pfam13518 487213004463 putative transposase OrfB; Reviewed; Region: PHA02517 487213004464 HTH-like domain; Region: HTH_21; pfam13276 487213004465 Integrase core domain; Region: rve; pfam00665 487213004466 Integrase core domain; Region: rve_2; pfam13333 487213004467 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 487213004468 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 487213004469 TPP-binding site [chemical binding]; other site 487213004470 dimer interface [polypeptide binding]; other site 487213004471 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 487213004472 PYR/PP interface [polypeptide binding]; other site 487213004473 dimer interface [polypeptide binding]; other site 487213004474 TPP binding site [chemical binding]; other site 487213004475 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 487213004476 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 487213004477 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 487213004478 substrate binding site [chemical binding]; other site 487213004479 hexamer interface [polypeptide binding]; other site 487213004480 metal binding site [ion binding]; metal-binding site 487213004481 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 487213004482 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 487213004483 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 487213004484 active site 487213004485 phosphorylation site [posttranslational modification] 487213004486 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 487213004487 active site 487213004488 phosphorylation site [posttranslational modification] 487213004489 HTH domain; Region: HTH_11; pfam08279 487213004490 Mga helix-turn-helix domain; Region: Mga; pfam05043 487213004491 PRD domain; Region: PRD; pfam00874 487213004492 PRD domain; Region: PRD; pfam00874 487213004493 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 487213004494 active site 487213004495 P-loop; other site 487213004496 phosphorylation site [posttranslational modification] 487213004497 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 487213004498 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 487213004499 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 487213004500 motif II; other site 487213004501 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 487213004502 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 487213004503 putative acyl-acceptor binding pocket; other site 487213004504 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 487213004505 Cadmium resistance transporter; Region: Cad; pfam03596 487213004506 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 487213004507 16S/18S rRNA binding site [nucleotide binding]; other site 487213004508 S13e-L30e interaction site [polypeptide binding]; other site 487213004509 25S rRNA binding site [nucleotide binding]; other site 487213004510 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 487213004511 NADH(P)-binding; Region: NAD_binding_10; pfam13460 487213004512 NAD binding site [chemical binding]; other site 487213004513 substrate binding site [chemical binding]; other site 487213004514 putative active site [active] 487213004515 T-box leader; cis-reg00002 487213004516 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 487213004517 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 487213004518 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 487213004519 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 487213004520 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 487213004521 active site 487213004522 dimer interface [polypeptide binding]; other site 487213004523 motif 1; other site 487213004524 motif 2; other site 487213004525 motif 3; other site 487213004526 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 487213004527 anticodon binding site; other site 487213004528 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 487213004529 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 487213004530 ATP binding site [chemical binding]; other site 487213004531 Mg2+ binding site [ion binding]; other site 487213004532 G-X-G motif; other site 487213004533 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213004534 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 487213004535 active site 487213004536 phosphorylation site [posttranslational modification] 487213004537 intermolecular recognition site; other site 487213004538 dimerization interface [polypeptide binding]; other site 487213004539 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 487213004540 DNA binding site [nucleotide binding] 487213004541 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 487213004542 nucleophilic elbow; other site 487213004543 catalytic triad; other site 487213004544 Predicted transcriptional regulator [Transcription]; Region: COG1959 487213004545 Transcriptional regulator; Region: Rrf2; pfam02082 487213004546 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 487213004547 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 487213004548 active site 487213004549 metal binding site [ion binding]; metal-binding site 487213004550 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 487213004551 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 487213004552 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 487213004553 FeoA domain; Region: FeoA; pfam04023 487213004554 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213004555 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 487213004556 putative active site [active] 487213004557 dimerization interface [polypeptide binding]; other site 487213004558 putative tRNAtyr binding site [nucleotide binding]; other site 487213004559 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 487213004560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 487213004561 Zn2+ binding site [ion binding]; other site 487213004562 Mg2+ binding site [ion binding]; other site 487213004563 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 487213004564 synthetase active site [active] 487213004565 NTP binding site [chemical binding]; other site 487213004566 metal binding site [ion binding]; metal-binding site 487213004567 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 487213004568 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 487213004569 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 487213004570 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 487213004571 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 487213004572 active site 487213004573 Zn binding site [ion binding]; other site 487213004574 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 487213004575 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 487213004576 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 487213004577 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 487213004578 ABC-ATPase subunit interface; other site 487213004579 dimer interface [polypeptide binding]; other site 487213004580 putative PBP binding regions; other site 487213004581 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 487213004582 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 487213004583 metal binding site [ion binding]; metal-binding site 487213004584 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 487213004585 dimer interface [polypeptide binding]; other site 487213004586 catalytic triad [active] 487213004587 peroxidatic and resolving cysteines [active] 487213004588 FtsX-like permease family; Region: FtsX; pfam02687 487213004589 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 487213004590 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 487213004591 FtsX-like permease family; Region: FtsX; pfam02687 487213004592 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 487213004593 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 487213004594 Walker A/P-loop; other site 487213004595 ATP binding site [chemical binding]; other site 487213004596 Q-loop/lid; other site 487213004597 ABC transporter signature motif; other site 487213004598 Walker B; other site 487213004599 D-loop; other site 487213004600 H-loop/switch region; other site 487213004601 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 487213004602 catalytic core [active] 487213004603 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 487213004604 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 487213004605 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 487213004606 active site 487213004607 HIGH motif; other site 487213004608 nucleotide binding site [chemical binding]; other site 487213004609 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 487213004610 active site 487213004611 KMSKS motif; other site 487213004612 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 487213004613 tRNA binding surface [nucleotide binding]; other site 487213004614 anticodon binding site; other site 487213004615 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 487213004616 T-box leader; cis-reg00005 487213004617 DivIVA domain; Region: DivI1A_domain; TIGR03544 487213004618 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 487213004619 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 487213004620 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 487213004621 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 487213004622 RNA binding surface [nucleotide binding]; other site 487213004623 YGGT family; Region: YGGT; pfam02325 487213004624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 487213004625 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 487213004626 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 487213004627 catalytic residue [active] 487213004628 cell division protein FtsZ; Validated; Region: PRK09330 487213004629 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 487213004630 nucleotide binding site [chemical binding]; other site 487213004631 SulA interaction site; other site 487213004632 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 487213004633 Cell division protein FtsA; Region: FtsA; smart00842 487213004634 Cell division protein FtsA; Region: FtsA; pfam14450 487213004635 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 487213004636 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 487213004637 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 487213004638 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 487213004639 nudix motif; other site 487213004640 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 487213004641 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 487213004642 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 487213004643 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 487213004644 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 487213004645 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 487213004646 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 487213004647 recombination protein RecR; Reviewed; Region: recR; PRK00076 487213004648 RecR protein; Region: RecR; pfam02132 487213004649 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 487213004650 putative active site [active] 487213004651 putative metal-binding site [ion binding]; other site 487213004652 tetramer interface [polypeptide binding]; other site 487213004653 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 487213004654 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 487213004655 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 487213004656 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 487213004657 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 487213004658 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 487213004659 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 487213004660 putative active site [active] 487213004661 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 487213004662 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 487213004663 nucleotide binding site [chemical binding]; other site 487213004664 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 487213004665 Class I aldolases; Region: Aldolase_Class_I; cl17187 487213004666 catalytic residue [active] 487213004667 Domain of unknown function (DUF386); Region: DUF386; pfam04074 487213004668 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 487213004669 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 487213004670 dimer interface [polypeptide binding]; other site 487213004671 conserved gate region; other site 487213004672 putative PBP binding loops; other site 487213004673 ABC-ATPase subunit interface; other site 487213004674 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 487213004675 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 487213004676 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 487213004677 putative PBP binding loops; other site 487213004678 dimer interface [polypeptide binding]; other site 487213004679 ABC-ATPase subunit interface; other site 487213004680 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 487213004681 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 487213004682 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 487213004683 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 487213004684 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 487213004685 active site turn [active] 487213004686 phosphorylation site [posttranslational modification] 487213004687 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 487213004688 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 487213004689 putative active site cavity [active] 487213004690 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 487213004691 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 487213004692 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 487213004693 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 487213004694 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 487213004695 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 487213004696 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 487213004697 Asp-box motif; other site 487213004698 catalytic site [active] 487213004699 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 487213004700 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 487213004701 dimer interface [polypeptide binding]; other site 487213004702 conserved gate region; other site 487213004703 putative PBP binding loops; other site 487213004704 ABC-ATPase subunit interface; other site 487213004705 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 487213004706 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 487213004707 dimer interface [polypeptide binding]; other site 487213004708 conserved gate region; other site 487213004709 putative PBP binding loops; other site 487213004710 ABC-ATPase subunit interface; other site 487213004711 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 487213004712 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 487213004713 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 487213004714 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 487213004715 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 487213004716 catalytic site [active] 487213004717 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 487213004718 Asp-box motif; other site 487213004719 Asp-box motif; other site 487213004720 catalytic site [active] 487213004721 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 487213004722 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 487213004723 ssDNA binding site; other site 487213004724 generic binding surface II; other site 487213004725 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 487213004726 ATP binding site [chemical binding]; other site 487213004727 putative Mg++ binding site [ion binding]; other site 487213004728 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 487213004729 nucleotide binding region [chemical binding]; other site 487213004730 ATP-binding site [chemical binding]; other site 487213004731 alanine racemase; Reviewed; Region: alr; PRK00053 487213004732 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 487213004733 active site 487213004734 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 487213004735 dimer interface [polypeptide binding]; other site 487213004736 substrate binding site [chemical binding]; other site 487213004737 catalytic residues [active] 487213004738 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 487213004739 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 487213004740 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 487213004741 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 487213004742 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 487213004743 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 487213004744 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 487213004745 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 487213004746 nucleotide binding region [chemical binding]; other site 487213004747 ATP-binding site [chemical binding]; other site 487213004748 SEC-C motif; Region: SEC-C; pfam02810 487213004749 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 487213004750 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 487213004751 Walker A/P-loop; other site 487213004752 ATP binding site [chemical binding]; other site 487213004753 Q-loop/lid; other site 487213004754 ABC transporter signature motif; other site 487213004755 Walker B; other site 487213004756 D-loop; other site 487213004757 H-loop/switch region; other site 487213004758 GTP-binding protein Der; Reviewed; Region: PRK00093 487213004759 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 487213004760 G1 box; other site 487213004761 GTP/Mg2+ binding site [chemical binding]; other site 487213004762 Switch I region; other site 487213004763 G2 box; other site 487213004764 Switch II region; other site 487213004765 G3 box; other site 487213004766 G4 box; other site 487213004767 G5 box; other site 487213004768 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 487213004769 G1 box; other site 487213004770 GTP/Mg2+ binding site [chemical binding]; other site 487213004771 Switch I region; other site 487213004772 G2 box; other site 487213004773 G3 box; other site 487213004774 Switch II region; other site 487213004775 G4 box; other site 487213004776 G5 box; other site 487213004777 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 487213004778 dimer interface [polypeptide binding]; other site 487213004779 FMN binding site [chemical binding]; other site 487213004780 NADPH bind site [chemical binding]; other site 487213004781 primosomal protein DnaI; Reviewed; Region: PRK08939 487213004782 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 487213004783 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 487213004784 Walker A motif; other site 487213004785 ATP binding site [chemical binding]; other site 487213004786 Walker B motif; other site 487213004787 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 487213004788 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 487213004789 ATP cone domain; Region: ATP-cone; pfam03477 487213004790 Predicted transcriptional regulators [Transcription]; Region: COG1725 487213004791 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213004792 DNA-binding site [nucleotide binding]; DNA binding site 487213004793 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 487213004794 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 487213004795 Walker A/P-loop; other site 487213004796 ATP binding site [chemical binding]; other site 487213004797 Q-loop/lid; other site 487213004798 ABC transporter signature motif; other site 487213004799 Walker B; other site 487213004800 D-loop; other site 487213004801 H-loop/switch region; other site 487213004802 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 487213004803 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 487213004804 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213004805 Walker A/P-loop; other site 487213004806 ATP binding site [chemical binding]; other site 487213004807 Q-loop/lid; other site 487213004808 ABC transporter signature motif; other site 487213004809 Walker B; other site 487213004810 D-loop; other site 487213004811 H-loop/switch region; other site 487213004812 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 487213004813 Uncharacterized conserved protein [Function unknown]; Region: COG0398 487213004814 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 487213004815 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 487213004816 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 487213004817 nucleotide binding site [chemical binding]; other site 487213004818 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 487213004819 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 487213004820 active site turn [active] 487213004821 phosphorylation site [posttranslational modification] 487213004822 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 487213004823 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 487213004824 HPr interaction site; other site 487213004825 glycerol kinase (GK) interaction site [polypeptide binding]; other site 487213004826 active site 487213004827 phosphorylation site [posttranslational modification] 487213004828 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 487213004829 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 487213004830 substrate binding [chemical binding]; other site 487213004831 active site 487213004832 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 487213004833 Transcriptional regulators [Transcription]; Region: PurR; COG1609 487213004834 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213004835 DNA binding site [nucleotide binding] 487213004836 domain linker motif; other site 487213004837 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 487213004838 dimerization interface [polypeptide binding]; other site 487213004839 ligand binding site [chemical binding]; other site 487213004840 sodium binding site [ion binding]; other site 487213004841 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 487213004842 homodimer interface [polypeptide binding]; other site 487213004843 catalytic residues [active] 487213004844 NAD binding site [chemical binding]; other site 487213004845 substrate binding pocket [chemical binding]; other site 487213004846 flexible flap; other site 487213004847 "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 487213004848 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 487213004849 dimer interface [polypeptide binding]; other site 487213004850 active site 487213004851 Uncharacterized conserved protein [Function unknown]; Region: COG3610 487213004852 Uncharacterized conserved protein [Function unknown]; Region: COG2966 487213004853 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 487213004854 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 487213004855 Catalytic domain of Protein Kinases; Region: PKc; cd00180 487213004856 active site 487213004857 ATP binding site [chemical binding]; other site 487213004858 substrate binding site [chemical binding]; other site 487213004859 activation loop (A-loop); other site 487213004860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 487213004861 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 487213004862 PASTA domain; Region: PASTA; smart00740 487213004863 PASTA domain; Region: PASTA; smart00740 487213004864 PASTA domain; Region: PASTA; smart00740 487213004865 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 487213004866 active site 487213004867 16S rRNA methyltransferase B; Provisional; Region: PRK14902 487213004868 NusB family; Region: NusB; pfam01029 487213004869 putative RNA binding site [nucleotide binding]; other site 487213004870 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 487213004871 S-adenosylmethionine binding site [chemical binding]; other site 487213004872 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 487213004873 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 487213004874 putative active site [active] 487213004875 substrate binding site [chemical binding]; other site 487213004876 putative cosubstrate binding site; other site 487213004877 catalytic site [active] 487213004878 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 487213004879 substrate binding site [chemical binding]; other site 487213004880 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 487213004881 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 487213004882 ATP binding site [chemical binding]; other site 487213004883 putative Mg++ binding site [ion binding]; other site 487213004884 helicase superfamily c-terminal domain; Region: HELICc; smart00490 487213004885 ATP-binding site [chemical binding]; other site 487213004886 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 487213004887 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 487213004888 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 487213004889 catalytic site [active] 487213004890 G-X2-G-X-G-K; other site 487213004891 hypothetical protein; Provisional; Region: PRK00106 487213004892 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 487213004893 Zn2+ binding site [ion binding]; other site 487213004894 Mg2+ binding site [ion binding]; other site 487213004895 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 487213004896 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213004897 hypothetical protein; Provisional; Region: PRK13670 487213004898 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 487213004899 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 487213004900 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 487213004901 S-adenosylmethionine binding site [chemical binding]; other site 487213004902 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 487213004903 Isochorismatase family; Region: Isochorismatase; pfam00857 487213004904 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 487213004905 catalytic triad [active] 487213004906 conserved cis-peptide bond; other site 487213004907 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 487213004908 Zn2+ binding site [ion binding]; other site 487213004909 Mg2+ binding site [ion binding]; other site 487213004910 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 487213004911 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 487213004912 active site 487213004913 (T/H)XGH motif; other site 487213004914 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 487213004915 GTPase YqeH; Provisional; Region: PRK13796 487213004916 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 487213004917 GTP/Mg2+ binding site [chemical binding]; other site 487213004918 G4 box; other site 487213004919 G5 box; other site 487213004920 G1 box; other site 487213004921 Switch I region; other site 487213004922 G2 box; other site 487213004923 G3 box; other site 487213004924 Switch II region; other site 487213004925 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 487213004926 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 487213004927 active site 487213004928 motif I; other site 487213004929 motif II; other site 487213004930 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 487213004931 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 487213004932 Cl binding site [ion binding]; other site 487213004933 oligomer interface [polypeptide binding]; other site 487213004934 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 487213004935 Mechanosensitive ion channel; Region: MS_channel; pfam00924 487213004936 Predicted membrane protein [Function unknown]; Region: COG4129 487213004937 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 487213004938 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 487213004939 MarR family; Region: MarR; pfam01047 487213004940 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 487213004941 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 487213004942 catalytic residues [active] 487213004943 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 487213004944 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 487213004945 amphipathic channel; other site 487213004946 Asn-Pro-Ala signature motifs; other site 487213004947 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 487213004948 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 487213004949 oligoendopeptidase F; Region: pepF; TIGR00181 487213004950 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 487213004951 Zn binding site [ion binding]; other site 487213004952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 487213004953 RNA methyltransferase, RsmE family; Region: TIGR00046 487213004954 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 487213004955 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 487213004956 S-adenosylmethionine binding site [chemical binding]; other site 487213004957 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 487213004958 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 487213004959 active site 487213004960 catalytic triad [active] 487213004961 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 487213004962 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 487213004963 Walker A motif; other site 487213004964 ATP binding site [chemical binding]; other site 487213004965 Walker B motif; other site 487213004966 arginine finger; other site 487213004967 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 487213004968 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 487213004969 Peptidase family M50; Region: Peptidase_M50; pfam02163 487213004970 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 487213004971 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 487213004972 YcfA-like protein; Region: YcfA; pfam07927 487213004973 recombination factor protein RarA; Reviewed; Region: PRK13342 487213004974 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 487213004975 Walker A motif; other site 487213004976 ATP binding site [chemical binding]; other site 487213004977 Walker B motif; other site 487213004978 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 487213004979 arginine finger; other site 487213004980 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 487213004981 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 487213004982 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 487213004983 substrate binding [chemical binding]; other site 487213004984 active site 487213004985 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 487213004986 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 487213004987 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 487213004988 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 487213004989 dimer interface [polypeptide binding]; other site 487213004990 conserved gate region; other site 487213004991 ABC-ATPase subunit interface; other site 487213004992 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 487213004993 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 487213004994 dimer interface [polypeptide binding]; other site 487213004995 conserved gate region; other site 487213004996 ABC-ATPase subunit interface; other site 487213004997 Transcriptional regulators [Transcription]; Region: PurR; COG1609 487213004998 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213004999 DNA binding site [nucleotide binding] 487213005000 domain linker motif; other site 487213005001 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 487213005002 dimerization interface [polypeptide binding]; other site 487213005003 ligand binding site [chemical binding]; other site 487213005004 sodium binding site [ion binding]; other site 487213005005 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 487213005006 Mga helix-turn-helix domain; Region: Mga; pfam05043 487213005007 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 487213005008 Predicted membrane protein [Function unknown]; Region: COG2261 487213005009 Small integral membrane protein [Function unknown]; Region: COG5547 487213005010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 487213005011 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 487213005012 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 487213005013 Coenzyme A binding pocket [chemical binding]; other site 487213005014 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 487213005015 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 487213005016 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 487213005017 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 487213005018 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 487213005019 non-specific DNA binding site [nucleotide binding]; other site 487213005020 salt bridge; other site 487213005021 sequence-specific DNA binding site [nucleotide binding]; other site 487213005022 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 487213005023 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 487213005024 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 487213005025 substrate binding site [chemical binding]; other site 487213005026 active site 487213005027 catalytic residues [active] 487213005028 heterodimer interface [polypeptide binding]; other site 487213005029 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 487213005030 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 487213005031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213005032 catalytic residue [active] 487213005033 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 487213005034 active site 487213005035 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 487213005036 active site 487213005037 ribulose/triose binding site [chemical binding]; other site 487213005038 phosphate binding site [ion binding]; other site 487213005039 substrate (anthranilate) binding pocket [chemical binding]; other site 487213005040 product (indole) binding pocket [chemical binding]; other site 487213005041 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 487213005042 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 487213005043 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 487213005044 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 487213005045 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 487213005046 glutamine binding [chemical binding]; other site 487213005047 catalytic triad [active] 487213005048 anthranilate synthase component I; Provisional; Region: PRK13570 487213005049 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 487213005050 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 487213005051 T-box leader; cis-reg00003 487213005052 T-box leader; cis-reg00004 487213005053 Transcriptional regulators [Transcription]; Region: PurR; COG1609 487213005054 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213005055 DNA binding site [nucleotide binding] 487213005056 domain linker motif; other site 487213005057 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 487213005058 putative dimerization interface [polypeptide binding]; other site 487213005059 putative ligand binding site [chemical binding]; other site 487213005060 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 487213005061 MgtC family; Region: MgtC; pfam02308 487213005062 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 487213005063 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 487213005064 dimer interface [polypeptide binding]; other site 487213005065 conserved gate region; other site 487213005066 putative PBP binding loops; other site 487213005067 ABC-ATPase subunit interface; other site 487213005068 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 487213005069 putative PBP binding loops; other site 487213005070 dimer interface [polypeptide binding]; other site 487213005071 ABC-ATPase subunit interface; other site 487213005072 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 487213005073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213005074 Walker A/P-loop; other site 487213005075 ATP binding site [chemical binding]; other site 487213005076 Q-loop/lid; other site 487213005077 ABC transporter signature motif; other site 487213005078 Walker B; other site 487213005079 D-loop; other site 487213005080 H-loop/switch region; other site 487213005081 TOBE domain; Region: TOBE_2; pfam08402 487213005082 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 487213005083 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 487213005084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 487213005085 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 487213005086 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 487213005087 UDP-glucose 4-epimerase; Region: PLN02240 487213005088 NAD binding site [chemical binding]; other site 487213005089 homodimer interface [polypeptide binding]; other site 487213005090 active site 487213005091 substrate binding site [chemical binding]; other site 487213005092 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 487213005093 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 487213005094 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 487213005095 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 487213005096 PhoU domain; Region: PhoU; pfam01895 487213005097 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 487213005098 active site 487213005099 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 487213005100 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 487213005101 Pectate lyase; Region: Pec_lyase_C; cl01593 487213005102 Right handed beta helix region; Region: Beta_helix; pfam13229 487213005103 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 487213005104 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 487213005105 inhibitor-cofactor binding pocket; inhibition site 487213005106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213005107 catalytic residue [active] 487213005108 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 487213005109 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213005110 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213005111 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 487213005112 Walker A/P-loop; other site 487213005113 ATP binding site [chemical binding]; other site 487213005114 Q-loop/lid; other site 487213005115 ABC transporter signature motif; other site 487213005116 Walker B; other site 487213005117 D-loop; other site 487213005118 H-loop/switch region; other site 487213005119 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213005120 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213005121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213005122 Walker A/P-loop; other site 487213005123 ATP binding site [chemical binding]; other site 487213005124 Q-loop/lid; other site 487213005125 ABC transporter signature motif; other site 487213005126 Walker B; other site 487213005127 D-loop; other site 487213005128 H-loop/switch region; other site 487213005129 Predicted membrane protein [Function unknown]; Region: COG2323 487213005130 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 487213005131 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 487213005132 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 487213005133 active site 487213005134 putative catalytic site [active] 487213005135 DNA binding site [nucleotide binding] 487213005136 putative phosphate binding site [ion binding]; other site 487213005137 metal binding site A [ion binding]; metal-binding site 487213005138 AP binding site [nucleotide binding]; other site 487213005139 metal binding site B [ion binding]; metal-binding site 487213005140 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213005141 active site 487213005142 xanthine permease; Region: pbuX; TIGR03173 487213005143 Sulfate transporter family; Region: Sulfate_transp; pfam00916 487213005144 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 487213005145 Dam-replacing family; Region: DRP; pfam06044 487213005146 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 487213005147 CoenzymeA binding site [chemical binding]; other site 487213005148 subunit interaction site [polypeptide binding]; other site 487213005149 PHB binding site; other site 487213005150 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 487213005151 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 487213005152 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 487213005153 galactokinase; Provisional; Region: PRK05322 487213005154 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 487213005155 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 487213005156 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 487213005157 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 487213005158 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213005159 DNA binding site [nucleotide binding] 487213005160 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 487213005161 putative dimerization interface [polypeptide binding]; other site 487213005162 putative ligand binding site [chemical binding]; other site 487213005163 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 487213005164 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 487213005165 catalytic Zn binding site [ion binding]; other site 487213005166 NAD(P) binding site [chemical binding]; other site 487213005167 structural Zn binding site [ion binding]; other site 487213005168 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 487213005169 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 487213005170 DNA binding residues [nucleotide binding] 487213005171 putative dimer interface [polypeptide binding]; other site 487213005172 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 487213005173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 487213005174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 487213005175 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 487213005176 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 487213005177 dimer interface [polypeptide binding]; other site 487213005178 conserved gate region; other site 487213005179 ABC-ATPase subunit interface; other site 487213005180 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 487213005181 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 487213005182 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 487213005183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213005184 Walker A/P-loop; other site 487213005185 ATP binding site [chemical binding]; other site 487213005186 Q-loop/lid; other site 487213005187 ABC transporter signature motif; other site 487213005188 Walker B; other site 487213005189 D-loop; other site 487213005190 H-loop/switch region; other site 487213005191 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 487213005192 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 487213005193 MarR family; Region: MarR_2; cl17246 487213005194 Enterocin A Immunity; Region: EntA_Immun; pfam08951 487213005195 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 487213005196 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 487213005197 oligomer interface [polypeptide binding]; other site 487213005198 active site 487213005199 metal binding site [ion binding]; metal-binding site 487213005200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 487213005201 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 487213005202 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 487213005203 ABC-ATPase subunit interface; other site 487213005204 dimer interface [polypeptide binding]; other site 487213005205 putative PBP binding regions; other site 487213005206 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 487213005207 ABC-ATPase subunit interface; other site 487213005208 dimer interface [polypeptide binding]; other site 487213005209 putative PBP binding regions; other site 487213005210 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 487213005211 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 487213005212 Walker A/P-loop; other site 487213005213 ATP binding site [chemical binding]; other site 487213005214 Q-loop/lid; other site 487213005215 ABC transporter signature motif; other site 487213005216 Walker B; other site 487213005217 D-loop; other site 487213005218 H-loop/switch region; other site 487213005219 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 487213005220 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 487213005221 putative ligand binding residues [chemical binding]; other site 487213005222 hypothetical protein; Validated; Region: PRK00041 487213005223 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 487213005224 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 487213005225 RNA binding surface [nucleotide binding]; other site 487213005226 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 487213005227 active site 487213005228 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 487213005229 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 487213005230 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 487213005231 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 487213005232 DNA binding site [nucleotide binding] 487213005233 Int/Topo IB signature motif; other site 487213005234 active site 487213005235 catalytic residues [active] 487213005236 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 487213005237 FOG: CBS domain [General function prediction only]; Region: COG0517 487213005238 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 487213005239 active site 487213005240 metal binding site [ion binding]; metal-binding site 487213005241 homotetramer interface [polypeptide binding]; other site 487213005242 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 487213005243 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 487213005244 active site 487213005245 dimerization interface [polypeptide binding]; other site 487213005246 glutamate racemase; Provisional; Region: PRK00865 487213005247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 487213005248 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 487213005249 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 487213005250 Ca binding site [ion binding]; other site 487213005251 active site 487213005252 catalytic site [active] 487213005253 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 487213005254 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 487213005255 active site turn [active] 487213005256 phosphorylation site [posttranslational modification] 487213005257 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 487213005258 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 487213005259 HPr interaction site; other site 487213005260 glycerol kinase (GK) interaction site [polypeptide binding]; other site 487213005261 active site 487213005262 phosphorylation site [posttranslational modification] 487213005263 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213005264 DNA-binding site [nucleotide binding]; DNA binding site 487213005265 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 487213005266 UTRA domain; Region: UTRA; pfam07702 487213005267 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 487213005268 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 487213005269 Walker A/P-loop; other site 487213005270 ATP binding site [chemical binding]; other site 487213005271 Q-loop/lid; other site 487213005272 ABC transporter signature motif; other site 487213005273 Walker B; other site 487213005274 D-loop; other site 487213005275 H-loop/switch region; other site 487213005276 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 487213005277 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 487213005278 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 487213005279 Walker A/P-loop; other site 487213005280 ATP binding site [chemical binding]; other site 487213005281 Q-loop/lid; other site 487213005282 ABC transporter signature motif; other site 487213005283 Walker B; other site 487213005284 D-loop; other site 487213005285 H-loop/switch region; other site 487213005286 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 487213005287 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 487213005288 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 487213005289 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 487213005290 dimer interface [polypeptide binding]; other site 487213005291 conserved gate region; other site 487213005292 putative PBP binding loops; other site 487213005293 ABC-ATPase subunit interface; other site 487213005294 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 487213005295 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 487213005296 dimer interface [polypeptide binding]; other site 487213005297 conserved gate region; other site 487213005298 putative PBP binding loops; other site 487213005299 ABC-ATPase subunit interface; other site 487213005300 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 487213005301 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 487213005302 peptide binding site [polypeptide binding]; other site 487213005303 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 487213005304 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 487213005305 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 487213005306 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 487213005307 active site 487213005308 homodimer interface [polypeptide binding]; other site 487213005309 catalytic site [active] 487213005310 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 487213005311 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 487213005312 dimer interface [polypeptide binding]; other site 487213005313 conserved gate region; other site 487213005314 putative PBP binding loops; other site 487213005315 ABC-ATPase subunit interface; other site 487213005316 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 487213005317 dimer interface [polypeptide binding]; other site 487213005318 conserved gate region; other site 487213005319 putative PBP binding loops; other site 487213005320 ABC-ATPase subunit interface; other site 487213005321 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 487213005322 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 487213005323 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 487213005324 Melibiase; Region: Melibiase; pfam02065 487213005325 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 487213005326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 487213005327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 487213005328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 487213005329 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 487213005330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213005331 DNA-binding site [nucleotide binding]; DNA binding site 487213005332 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 487213005333 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 487213005334 TRAM domain; Region: TRAM; pfam01938 487213005335 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 487213005336 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 487213005337 S-adenosylmethionine binding site [chemical binding]; other site 487213005338 recombination regulator RecX; Provisional; Region: recX; PRK14135 487213005339 hypothetical protein; Provisional; Region: PRK13662 487213005340 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 487213005341 Methyltransferase domain; Region: Methyltransf_31; pfam13847 487213005342 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 487213005343 S-adenosylmethionine binding site [chemical binding]; other site 487213005344 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 487213005345 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 487213005346 ring oligomerisation interface [polypeptide binding]; other site 487213005347 ATP/Mg binding site [chemical binding]; other site 487213005348 stacking interactions; other site 487213005349 hinge regions; other site 487213005350 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 487213005351 oligomerisation interface [polypeptide binding]; other site 487213005352 mobile loop; other site 487213005353 roof hairpin; other site 487213005354 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 487213005355 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 487213005356 dimer interface [polypeptide binding]; other site 487213005357 ssDNA binding site [nucleotide binding]; other site 487213005358 tetramer (dimer of dimers) interface [polypeptide binding]; other site 487213005359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 487213005360 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 487213005361 NAD(P) binding site [chemical binding]; other site 487213005362 active site 487213005363 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 487213005364 putative tRNA-binding site [nucleotide binding]; other site 487213005365 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 487213005366 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 487213005367 catalytic residues [active] 487213005368 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213005369 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 487213005370 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 487213005371 LytTr DNA-binding domain; Region: LytTR; pfam04397 487213005372 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 487213005373 active site 487213005374 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 487213005375 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 487213005376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213005377 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 487213005378 Walker A/P-loop; other site 487213005379 ATP binding site [chemical binding]; other site 487213005380 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 487213005381 Walker A/P-loop; other site 487213005382 ATP binding site [chemical binding]; other site 487213005383 Q-loop/lid; other site 487213005384 ABC transporter signature motif; other site 487213005385 Walker B; other site 487213005386 D-loop; other site 487213005387 H-loop/switch region; other site 487213005388 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213005389 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213005390 MarR family; Region: MarR_2; pfam12802 487213005391 Transcriptional regulators [Transcription]; Region: MarR; COG1846 487213005392 hypothetical protein; Provisional; Region: PRK12378 487213005393 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 487213005394 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 487213005395 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 487213005396 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 487213005397 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 487213005398 putative active site [active] 487213005399 catalytic site [active] 487213005400 putative metal binding site [ion binding]; other site 487213005401 oligomer interface [polypeptide binding]; other site 487213005402 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 487213005403 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 487213005404 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 487213005405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213005406 Walker A/P-loop; other site 487213005407 ATP binding site [chemical binding]; other site 487213005408 Q-loop/lid; other site 487213005409 ABC transporter signature motif; other site 487213005410 Walker B; other site 487213005411 D-loop; other site 487213005412 H-loop/switch region; other site 487213005413 TOBE domain; Region: TOBE_2; pfam08402 487213005414 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 487213005415 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 487213005416 motif II; other site 487213005417 Transcriptional regulators [Transcription]; Region: PurR; COG1609 487213005418 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213005419 DNA binding site [nucleotide binding] 487213005420 domain linker motif; other site 487213005421 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 487213005422 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 487213005423 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 487213005424 Domain of unknown function (DUF955); Region: DUF955; cl01076 487213005425 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 487213005426 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 487213005427 non-specific DNA binding site [nucleotide binding]; other site 487213005428 salt bridge; other site 487213005429 sequence-specific DNA binding site [nucleotide binding]; other site 487213005430 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213005431 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 487213005432 amidase catalytic site [active] 487213005433 Zn binding residues [ion binding]; other site 487213005434 substrate binding site [chemical binding]; other site 487213005435 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213005436 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213005437 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 487213005438 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 487213005439 recombinase A; Provisional; Region: recA; PRK09354 487213005440 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 487213005441 hexamer interface [polypeptide binding]; other site 487213005442 Walker A motif; other site 487213005443 ATP binding site [chemical binding]; other site 487213005444 Walker B motif; other site 487213005445 competence damage-inducible protein A; Provisional; Region: PRK00549 487213005446 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 487213005447 putative MPT binding site; other site 487213005448 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 487213005449 Transcriptional regulator [Transcription]; Region: LytR; COG1316 487213005450 putative acetyltransferase YhhY; Provisional; Region: PRK10140 487213005451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 487213005452 Coenzyme A binding pocket [chemical binding]; other site 487213005453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 487213005454 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 487213005455 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 487213005456 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 487213005457 non-specific DNA binding site [nucleotide binding]; other site 487213005458 salt bridge; other site 487213005459 sequence-specific DNA binding site [nucleotide binding]; other site 487213005460 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 487213005461 Bacterial protein of unknown function (DUF961); Region: DUF961; pfam06125 487213005462 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 487213005463 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 487213005464 Walker A motif; other site 487213005465 ATP binding site [chemical binding]; other site 487213005466 Walker B motif; other site 487213005467 arginine finger; other site 487213005468 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 487213005469 non-specific DNA binding site [nucleotide binding]; other site 487213005470 salt bridge; other site 487213005471 sequence-specific DNA binding site [nucleotide binding]; other site 487213005472 Replication initiation factor; Region: Rep_trans; pfam02486 487213005473 Antirestriction protein (ArdA); Region: ArdA; pfam07275 487213005474 TcpE family; Region: TcpE; pfam12648 487213005475 AAA-like domain; Region: AAA_10; pfam12846 487213005476 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 487213005477 Haemolysin-III related; Region: HlyIII; cl03831 487213005478 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 487213005479 N-acetyl-D-glucosamine binding site [chemical binding]; other site 487213005480 catalytic residue [active] 487213005481 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 487213005482 NlpC/P60 family; Region: NLPC_P60; pfam00877 487213005483 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 487213005484 tetracycline resistance determinant leader peptide; Provisional; Region: PRK14751 487213005485 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 487213005486 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 487213005487 G1 box; other site 487213005488 putative GEF interaction site [polypeptide binding]; other site 487213005489 GTP/Mg2+ binding site [chemical binding]; other site 487213005490 Switch I region; other site 487213005491 G2 box; other site 487213005492 G3 box; other site 487213005493 Switch II region; other site 487213005494 G4 box; other site 487213005495 G5 box; other site 487213005496 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 487213005497 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 487213005498 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 487213005499 impB/mucB/samB family C-terminal; Region: IMS_C; pfam11799 487213005500 YolD-like protein; Region: YolD; pfam08863 487213005501 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 487213005502 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213005503 ABC transporter; Region: ABC_tran_2; pfam12848 487213005504 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213005505 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 487213005506 H+ Antiporter protein; Region: 2A0121; TIGR00900 487213005507 putative substrate translocation pore; other site 487213005508 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 487213005509 non-specific DNA binding site [nucleotide binding]; other site 487213005510 salt bridge; other site 487213005511 sequence-specific DNA binding site [nucleotide binding]; other site 487213005512 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 487213005513 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 487213005514 DNA binding residues [nucleotide binding] 487213005515 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 487213005516 DNA binding domain of tn916 integrase; Region: Integrase_DNA; pfam02920 487213005517 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 487213005518 Int/Topo IB signature motif; other site 487213005519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 487213005520 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 487213005521 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 487213005522 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 487213005523 Walker A/P-loop; other site 487213005524 ATP binding site [chemical binding]; other site 487213005525 Q-loop/lid; other site 487213005526 ABC transporter signature motif; other site 487213005527 Walker B; other site 487213005528 D-loop; other site 487213005529 H-loop/switch region; other site 487213005530 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 487213005531 active site 487213005532 multimer interface [polypeptide binding]; other site 487213005533 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 487213005534 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 487213005535 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 487213005536 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 487213005537 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 487213005538 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 487213005539 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 487213005540 G-loop; other site 487213005541 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 487213005542 DNA binding site [nucleotide binding] 487213005543 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 487213005544 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 487213005545 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; cl17585 487213005546 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 487213005547 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; cl17585 487213005548 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 487213005549 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 487213005550 RPB1 interaction site [polypeptide binding]; other site 487213005551 RPB10 interaction site [polypeptide binding]; other site 487213005552 RPB11 interaction site [polypeptide binding]; other site 487213005553 RPB3 interaction site [polypeptide binding]; other site 487213005554 RPB12 interaction site [polypeptide binding]; other site 487213005555 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 487213005556 Domain of unknown function DUF21; Region: DUF21; pfam01595 487213005557 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 487213005558 Transporter associated domain; Region: CorC_HlyC; smart01091 487213005559 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 487213005560 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 487213005561 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 487213005562 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 487213005563 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 487213005564 hinge; other site 487213005565 active site 487213005566 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 487213005567 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 487213005568 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 487213005569 protein binding site [polypeptide binding]; other site 487213005570 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 487213005571 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 487213005572 active site 487213005573 (T/H)XGH motif; other site 487213005574 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 487213005575 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 487213005576 S-adenosylmethionine binding site [chemical binding]; other site 487213005577 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 487213005578 dimer interface [polypeptide binding]; other site 487213005579 active site 487213005580 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 487213005581 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 487213005582 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 487213005583 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 487213005584 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 487213005585 acylphosphatase; Provisional; Region: PRK14434 487213005586 OxaA-like protein precursor; Provisional; Region: PRK02463 487213005587 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 487213005588 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 487213005589 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 487213005590 FeS/SAM binding site; other site 487213005591 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 487213005592 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 487213005593 active site 487213005594 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 487213005595 substrate binding site [chemical binding]; other site 487213005596 catalytic residues [active] 487213005597 dimer interface [polypeptide binding]; other site 487213005598 pur operon repressor; Provisional; Region: PRK09213 487213005599 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 487213005600 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213005601 active site 487213005602 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 487213005603 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 487213005604 generic binding surface II; other site 487213005605 generic binding surface I; other site 487213005606 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 487213005607 Zn2+ binding site [ion binding]; other site 487213005608 Mg2+ binding site [ion binding]; other site 487213005609 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 487213005610 RmuC family; Region: RmuC; pfam02646 487213005611 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 487213005612 Thiamine pyrophosphokinase; Region: TPK; cd07995 487213005613 active site 487213005614 dimerization interface [polypeptide binding]; other site 487213005615 thiamine binding site [chemical binding]; other site 487213005616 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 487213005617 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 487213005618 substrate binding site [chemical binding]; other site 487213005619 hexamer interface [polypeptide binding]; other site 487213005620 metal binding site [ion binding]; metal-binding site 487213005621 GTPase RsgA; Reviewed; Region: PRK00098 487213005622 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 487213005623 RNA binding site [nucleotide binding]; other site 487213005624 homodimer interface [polypeptide binding]; other site 487213005625 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 487213005626 GTPase/Zn-binding domain interface [polypeptide binding]; other site 487213005627 GTP/Mg2+ binding site [chemical binding]; other site 487213005628 G4 box; other site 487213005629 G5 box; other site 487213005630 G1 box; other site 487213005631 Switch I region; other site 487213005632 G2 box; other site 487213005633 G3 box; other site 487213005634 Switch II region; other site 487213005635 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 487213005636 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 487213005637 S-adenosylmethionine binding site [chemical binding]; other site 487213005638 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 487213005639 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 487213005640 Walker A/P-loop; other site 487213005641 ATP binding site [chemical binding]; other site 487213005642 Q-loop/lid; other site 487213005643 ABC transporter signature motif; other site 487213005644 Walker B; other site 487213005645 D-loop; other site 487213005646 H-loop/switch region; other site 487213005647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 487213005648 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 487213005649 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 487213005650 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 487213005651 non-specific DNA binding site [nucleotide binding]; other site 487213005652 salt bridge; other site 487213005653 sequence-specific DNA binding site [nucleotide binding]; other site 487213005654 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 487213005655 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 487213005656 putative active site [active] 487213005657 putative metal binding site [ion binding]; other site 487213005658 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 487213005659 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 487213005660 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 487213005661 active site 487213005662 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 487213005663 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 487213005664 aminotransferase AlaT; Validated; Region: PRK09265 487213005665 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 487213005666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213005667 homodimer interface [polypeptide binding]; other site 487213005668 catalytic residue [active] 487213005669 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 487213005670 Ligand Binding Site [chemical binding]; other site 487213005671 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 487213005672 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 487213005673 active site 487213005674 motif I; other site 487213005675 motif II; other site 487213005676 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 487213005677 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Exiguobacterium sibiricum YP_001813558.1 protein and its bacterial homologs; Region: NTP-PPase_YP_001813558; cd11545 487213005678 putative nucleotide binding site [chemical binding]; other site 487213005679 putative metal binding site [ion binding]; other site 487213005680 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 487213005681 active site 487213005682 homotetramer interface [polypeptide binding]; other site 487213005683 homodimer interface [polypeptide binding]; other site 487213005684 catabolite control protein A; Region: ccpA; TIGR01481 487213005685 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213005686 DNA binding site [nucleotide binding] 487213005687 domain linker motif; other site 487213005688 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 487213005689 dimerization interface [polypeptide binding]; other site 487213005690 effector binding site; other site 487213005691 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 487213005692 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 487213005693 active site 487213005694 phosphorylation site [posttranslational modification] 487213005695 intermolecular recognition site; other site 487213005696 dimerization interface [polypeptide binding]; other site 487213005697 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 487213005698 DNA binding residues [nucleotide binding] 487213005699 dimerization interface [polypeptide binding]; other site 487213005700 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 487213005701 Histidine kinase; Region: HisKA_3; pfam07730 487213005702 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 487213005703 Mg2+ binding site [ion binding]; other site 487213005704 G-X-G motif; other site 487213005705 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 487213005706 ABC-2 type transporter; Region: ABC2_membrane; cl17235 487213005707 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 487213005708 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 487213005709 Walker A/P-loop; other site 487213005710 ATP binding site [chemical binding]; other site 487213005711 Q-loop/lid; other site 487213005712 ABC transporter signature motif; other site 487213005713 Walker B; other site 487213005714 D-loop; other site 487213005715 H-loop/switch region; other site 487213005716 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 487213005717 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 487213005718 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 487213005719 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 487213005720 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 487213005721 putative homodimer interface [polypeptide binding]; other site 487213005722 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 487213005723 heterodimer interface [polypeptide binding]; other site 487213005724 homodimer interface [polypeptide binding]; other site 487213005725 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 487213005726 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 487213005727 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 487213005728 Transglycosylase; Region: Transgly; pfam00912 487213005729 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 487213005730 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 487213005731 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 487213005732 active site 487213005733 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 487213005734 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 487213005735 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 487213005736 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 487213005737 FtsX-like permease family; Region: FtsX; pfam02687 487213005738 Helix-turn-helix domain; Region: HTH_28; pfam13518 487213005739 Winged helix-turn helix; Region: HTH_29; pfam13551 487213005740 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 487213005741 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 487213005742 dimerization interface [polypeptide binding]; other site 487213005743 active site 487213005744 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 487213005745 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 487213005746 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 487213005747 Walker A/P-loop; other site 487213005748 ATP binding site [chemical binding]; other site 487213005749 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 487213005750 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 487213005751 DNA-binding site [nucleotide binding]; DNA binding site 487213005752 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 487213005753 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 487213005754 beta-galactosidase; Region: BGL; TIGR03356 487213005755 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 487213005756 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 487213005757 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 487213005758 active site 487213005759 P-loop; other site 487213005760 phosphorylation site [posttranslational modification] 487213005761 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 487213005762 methionine cluster; other site 487213005763 active site 487213005764 phosphorylation site [posttranslational modification] 487213005765 metal binding site [ion binding]; metal-binding site 487213005766 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 487213005767 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 487213005768 putative catalytic cysteine [active] 487213005769 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 487213005770 putative active site [active] 487213005771 metal binding site [ion binding]; metal-binding site 487213005772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 487213005773 MORN repeat; Region: MORN; cl14787 487213005774 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 487213005775 Low molecular weight phosphatase family; Region: LMWPc; cd00115 487213005776 active site 487213005777 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 487213005778 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 487213005779 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 487213005780 TPP-binding site [chemical binding]; other site 487213005781 dimer interface [polypeptide binding]; other site 487213005782 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 487213005783 PYR/PP interface [polypeptide binding]; other site 487213005784 dimer interface [polypeptide binding]; other site 487213005785 TPP binding site [chemical binding]; other site 487213005786 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 487213005787 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 487213005788 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 487213005789 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 487213005790 PRD domain; Region: PRD; pfam00874 487213005791 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 487213005792 active site 487213005793 P-loop; other site 487213005794 phosphorylation site [posttranslational modification] 487213005795 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 487213005796 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 487213005797 intersubunit interface [polypeptide binding]; other site 487213005798 active site 487213005799 Zn2+ binding site [ion binding]; other site 487213005800 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 487213005801 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 487213005802 AP (apurinic/apyrimidinic) site pocket; other site 487213005803 DNA interaction; other site 487213005804 Metal-binding active site; metal-binding site 487213005805 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 487213005806 active site 487213005807 dimer interface [polypeptide binding]; other site 487213005808 magnesium binding site [ion binding]; other site 487213005809 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 487213005810 active site 487213005811 phosphorylation site [posttranslational modification] 487213005812 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 487213005813 active site 487213005814 P-loop; other site 487213005815 phosphorylation site [posttranslational modification] 487213005816 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 487213005817 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 487213005818 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 487213005819 G-X-X-G motif; other site 487213005820 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 487213005821 RxxxH motif; other site 487213005822 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 487213005823 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 487213005824 ribonuclease P; Reviewed; Region: rnpA; PRK00499 487213005825 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 487213005826 propionate/acetate kinase; Provisional; Region: PRK12379 487213005827 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 487213005828 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 487213005829 S-adenosylmethionine binding site [chemical binding]; other site 487213005830 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 487213005831 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 487213005832 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 487213005833 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 487213005834 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 487213005835 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 487213005836 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 487213005837 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 487213005838 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 487213005839 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 487213005840 Walker A motif; other site 487213005841 ATP binding site [chemical binding]; other site 487213005842 Walker B motif; other site 487213005843 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 487213005844 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 487213005845 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 487213005846 catalytic Zn binding site [ion binding]; other site 487213005847 structural Zn binding site [ion binding]; other site 487213005848 NAD(P) binding site [chemical binding]; other site 487213005849 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 487213005850 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 487213005851 active site 487213005852 dimer interface [polypeptide binding]; other site 487213005853 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 487213005854 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 487213005855 catalytic triad [active] 487213005856 catalytic triad [active] 487213005857 oxyanion hole [active] 487213005858 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 487213005859 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 487213005860 Predicted integral membrane protein [Function unknown]; Region: COG5523 487213005861 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 487213005862 putative substrate binding pocket [chemical binding]; other site 487213005863 AC domain interface; other site 487213005864 catalytic triad [active] 487213005865 AB domain interface; other site 487213005866 interchain disulfide; other site 487213005867 Predicted membrane protein [Function unknown]; Region: COG3759 487213005868 Transcriptional regulators [Transcription]; Region: MarR; COG1846 487213005869 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 487213005870 putative DNA binding site [nucleotide binding]; other site 487213005871 putative Zn2+ binding site [ion binding]; other site 487213005872 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 487213005873 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 487213005874 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 487213005875 motif II; other site 487213005876 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 487213005877 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 487213005878 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 487213005879 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 487213005880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213005881 catalytic residue [active] 487213005882 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 487213005883 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 487213005884 active site 487213005885 catalytic motif [active] 487213005886 Zn binding site [ion binding]; other site 487213005887 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 487213005888 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 487213005889 active site 487213005890 HIGH motif; other site 487213005891 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 487213005892 active site 487213005893 KMSKS motif; other site 487213005894 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 487213005895 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 487213005896 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 487213005897 active site 487213005898 dimer interface [polypeptide binding]; other site 487213005899 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 487213005900 dimer interface [polypeptide binding]; other site 487213005901 active site 487213005902 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 487213005903 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 487213005904 catalytic triad [active] 487213005905 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213005906 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213005907 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213005908 Walker A/P-loop; other site 487213005909 ATP binding site [chemical binding]; other site 487213005910 Q-loop/lid; other site 487213005911 ABC transporter signature motif; other site 487213005912 Walker B; other site 487213005913 D-loop; other site 487213005914 H-loop/switch region; other site 487213005915 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 487213005916 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 487213005917 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 487213005918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213005919 Walker A/P-loop; other site 487213005920 ATP binding site [chemical binding]; other site 487213005921 Q-loop/lid; other site 487213005922 ABC transporter signature motif; other site 487213005923 Walker B; other site 487213005924 D-loop; other site 487213005925 H-loop/switch region; other site 487213005926 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 487213005927 MutS domain I; Region: MutS_I; pfam01624 487213005928 MutS domain II; Region: MutS_II; pfam05188 487213005929 MutS domain III; Region: MutS_III; pfam05192 487213005930 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 487213005931 Walker A/P-loop; other site 487213005932 ATP binding site [chemical binding]; other site 487213005933 Q-loop/lid; other site 487213005934 ABC transporter signature motif; other site 487213005935 Walker B; other site 487213005936 D-loop; other site 487213005937 H-loop/switch region; other site 487213005938 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 487213005939 arginine repressor; Region: argR_whole; TIGR01529 487213005940 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 487213005941 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 487213005942 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 487213005943 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 487213005944 active site 487213005945 HIGH motif; other site 487213005946 KMSK motif region; other site 487213005947 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 487213005948 tRNA binding surface [nucleotide binding]; other site 487213005949 anticodon binding site; other site 487213005950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 487213005951 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 487213005952 Uncharacterized conserved protein [Function unknown]; Region: COG3542 487213005953 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213005954 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 487213005955 active site 487213005956 phosphorylation site [posttranslational modification] 487213005957 intermolecular recognition site; other site 487213005958 dimerization interface [polypeptide binding]; other site 487213005959 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 487213005960 DNA binding site [nucleotide binding] 487213005961 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 487213005962 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 487213005963 dimer interface [polypeptide binding]; other site 487213005964 phosphorylation site [posttranslational modification] 487213005965 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 487213005966 ATP binding site [chemical binding]; other site 487213005967 G-X-G motif; other site 487213005968 PBP superfamily domain; Region: PBP_like_2; cl17296 487213005969 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 487213005970 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 487213005971 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 487213005972 dimer interface [polypeptide binding]; other site 487213005973 conserved gate region; other site 487213005974 putative PBP binding loops; other site 487213005975 ABC-ATPase subunit interface; other site 487213005976 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 487213005977 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 487213005978 dimer interface [polypeptide binding]; other site 487213005979 conserved gate region; other site 487213005980 putative PBP binding loops; other site 487213005981 ABC-ATPase subunit interface; other site 487213005982 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 487213005983 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 487213005984 Walker A/P-loop; other site 487213005985 ATP binding site [chemical binding]; other site 487213005986 Q-loop/lid; other site 487213005987 ABC transporter signature motif; other site 487213005988 Walker B; other site 487213005989 D-loop; other site 487213005990 H-loop/switch region; other site 487213005991 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 487213005992 PhoU domain; Region: PhoU; pfam01895 487213005993 PhoU domain; Region: PhoU; pfam01895 487213005994 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 487213005995 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 487213005996 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 487213005997 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 487213005998 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 487213005999 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 487213006000 active site 487213006001 tetramer interface; other site 487213006002 Rhomboid family; Region: Rhomboid; pfam01694 487213006003 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 487213006004 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 487213006005 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 487213006006 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 487213006007 metal binding site [ion binding]; metal-binding site 487213006008 putative dimer interface [polypeptide binding]; other site 487213006009 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 487213006010 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 487213006011 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 487213006012 trimer interface [polypeptide binding]; other site 487213006013 active site 487213006014 substrate binding site [chemical binding]; other site 487213006015 CoA binding site [chemical binding]; other site 487213006016 EamA-like transporter family; Region: EamA; pfam00892 487213006017 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 487213006018 Transglycosylase; Region: Transgly; pfam00912 487213006019 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 487213006020 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 487213006021 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 487213006022 active site 487213006023 HIGH motif; other site 487213006024 dimer interface [polypeptide binding]; other site 487213006025 KMSKS motif; other site 487213006026 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 487213006027 RNA binding surface [nucleotide binding]; other site 487213006028 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 487213006029 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 487213006030 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 487213006031 motif II; other site 487213006032 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 487213006033 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 487213006034 S-adenosylmethionine binding site [chemical binding]; other site 487213006035 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 487213006036 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 487213006037 4-alpha-glucanotransferase; Provisional; Region: PRK14508 487213006038 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 487213006039 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 487213006040 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 487213006041 dimer interface [polypeptide binding]; other site 487213006042 conserved gate region; other site 487213006043 putative PBP binding loops; other site 487213006044 ABC-ATPase subunit interface; other site 487213006045 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 487213006046 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 487213006047 dimer interface [polypeptide binding]; other site 487213006048 conserved gate region; other site 487213006049 putative PBP binding loops; other site 487213006050 ABC-ATPase subunit interface; other site 487213006051 Predicted integral membrane protein [Function unknown]; Region: COG5521 487213006052 Transcriptional regulators [Transcription]; Region: PurR; COG1609 487213006053 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 487213006054 DNA binding site [nucleotide binding] 487213006055 domain linker motif; other site 487213006056 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 487213006057 putative dimerization interface [polypeptide binding]; other site 487213006058 putative ligand binding site [chemical binding]; other site 487213006059 Uncharacterized conserved protein [Function unknown]; Region: COG1284 487213006060 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 487213006061 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 487213006062 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 487213006063 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 487213006064 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 487213006065 dimer interface [polypeptide binding]; other site 487213006066 anticodon binding site; other site 487213006067 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 487213006068 homodimer interface [polypeptide binding]; other site 487213006069 motif 1; other site 487213006070 active site 487213006071 motif 2; other site 487213006072 GAD domain; Region: GAD; pfam02938 487213006073 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 487213006074 motif 3; other site 487213006075 CAAX protease self-immunity; Region: Abi; pfam02517 487213006076 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 487213006077 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 487213006078 non-specific DNA binding site [nucleotide binding]; other site 487213006079 salt bridge; other site 487213006080 sequence-specific DNA binding site [nucleotide binding]; other site 487213006081 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 487213006082 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 487213006083 dimer interface [polypeptide binding]; other site 487213006084 motif 1; other site 487213006085 active site 487213006086 motif 2; other site 487213006087 motif 3; other site 487213006088 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 487213006089 anticodon binding site; other site 487213006090 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 487213006091 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 487213006092 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 487213006093 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 487213006094 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 487213006095 PYR/PP interface [polypeptide binding]; other site 487213006096 dimer interface [polypeptide binding]; other site 487213006097 TPP binding site [chemical binding]; other site 487213006098 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 487213006099 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 487213006100 TPP-binding site [chemical binding]; other site 487213006101 dimer interface [polypeptide binding]; other site 487213006102 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 487213006103 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 487213006104 active site 487213006105 P-loop; other site 487213006106 phosphorylation site [posttranslational modification] 487213006107 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 487213006108 PRD domain; Region: PRD; pfam00874 487213006109 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 487213006110 active site 487213006111 P-loop; other site 487213006112 phosphorylation site [posttranslational modification] 487213006113 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 487213006114 active site 487213006115 phosphorylation site [posttranslational modification] 487213006116 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 487213006117 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 487213006118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 487213006119 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 487213006120 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 487213006121 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 487213006122 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213006123 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006124 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006125 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006126 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006127 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006128 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006129 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 487213006130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 487213006131 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 487213006132 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 487213006133 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 487213006134 putative active site [active] 487213006135 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 487213006136 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 487213006137 nucleotide binding site [chemical binding]; other site 487213006138 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 487213006139 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 487213006140 active site 487213006141 metal binding site [ion binding]; metal-binding site 487213006142 homodimer interface [polypeptide binding]; other site 487213006143 catalytic site [active] 487213006144 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 487213006145 Uncharacterized conserved protein [Function unknown]; Region: COG3538 487213006146 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 487213006147 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 487213006148 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 487213006149 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 487213006150 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 487213006151 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 487213006152 arginine deiminase; Provisional; Region: PRK01388 487213006153 ornithine carbamoyltransferase; Validated; Region: PRK02102 487213006154 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 487213006155 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 487213006156 carbamate kinase; Reviewed; Region: PRK12686 487213006157 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 487213006158 putative substrate binding site [chemical binding]; other site 487213006159 nucleotide binding site [chemical binding]; other site 487213006160 nucleotide binding site [chemical binding]; other site 487213006161 homodimer interface [polypeptide binding]; other site 487213006162 Predicted membrane protein [Function unknown]; Region: COG1288 487213006163 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 487213006164 hypothetical protein; Provisional; Region: PRK07205 487213006165 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 487213006166 active site 487213006167 metal binding site [ion binding]; metal-binding site 487213006168 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 487213006169 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 487213006170 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 487213006171 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 487213006172 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 487213006173 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 487213006174 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 487213006175 dimer interface [polypeptide binding]; other site 487213006176 active site 487213006177 metal binding site [ion binding]; metal-binding site 487213006178 L-fucose isomerase; Provisional; Region: fucI; PRK10991 487213006179 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 487213006180 hexamer (dimer of trimers) interface [polypeptide binding]; other site 487213006181 trimer interface [polypeptide binding]; other site 487213006182 substrate binding site [chemical binding]; other site 487213006183 Mn binding site [ion binding]; other site 487213006184 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 487213006185 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 487213006186 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 487213006187 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 487213006188 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 487213006189 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 487213006190 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 487213006191 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 487213006192 active site 487213006193 phosphorylation site [posttranslational modification] 487213006194 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 487213006195 active pocket/dimerization site; other site 487213006196 active site 487213006197 phosphorylation site [posttranslational modification] 487213006198 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 487213006199 L-fuculose phosphate aldolase; Provisional; Region: PRK06833 487213006200 intersubunit interface [polypeptide binding]; other site 487213006201 active site 487213006202 Zn2+ binding site [ion binding]; other site 487213006203 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 487213006204 N- and C-terminal domain interface [polypeptide binding]; other site 487213006205 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 487213006206 active site 487213006207 putative catalytic site [active] 487213006208 metal binding site [ion binding]; metal-binding site 487213006209 ATP binding site [chemical binding]; other site 487213006210 carbohydrate binding site [chemical binding]; other site 487213006211 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 487213006212 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 487213006213 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 487213006214 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 487213006215 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 487213006216 metal binding site [ion binding]; metal-binding site 487213006217 YodA lipocalin-like domain; Region: YodA; pfam09223 487213006218 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 487213006219 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 487213006220 ABC-ATPase subunit interface; other site 487213006221 dimer interface [polypeptide binding]; other site 487213006222 putative PBP binding regions; other site 487213006223 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 487213006224 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 487213006225 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 487213006226 putative DNA binding site [nucleotide binding]; other site 487213006227 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 487213006228 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 487213006229 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 487213006230 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 487213006231 acyl-activating enzyme (AAE) consensus motif; other site 487213006232 AMP binding site [chemical binding]; other site 487213006233 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 487213006234 H+ Antiporter protein; Region: 2A0121; TIGR00900 487213006235 putative substrate translocation pore; other site 487213006236 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 487213006237 amphipathic channel; other site 487213006238 Asn-Pro-Ala signature motifs; other site 487213006239 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 487213006240 glycerol kinase; Provisional; Region: glpK; PRK00047 487213006241 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 487213006242 N- and C-terminal domain interface [polypeptide binding]; other site 487213006243 active site 487213006244 MgATP binding site [chemical binding]; other site 487213006245 catalytic site [active] 487213006246 metal binding site [ion binding]; metal-binding site 487213006247 glycerol binding site [chemical binding]; other site 487213006248 homotetramer interface [polypeptide binding]; other site 487213006249 homodimer interface [polypeptide binding]; other site 487213006250 FBP binding site [chemical binding]; other site 487213006251 protein IIAGlc interface [polypeptide binding]; other site 487213006252 Mga helix-turn-helix domain; Region: Mga; pfam05043 487213006253 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 487213006254 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 487213006255 dimerization interface [polypeptide binding]; other site 487213006256 domain crossover interface; other site 487213006257 redox-dependent activation switch; other site 487213006258 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 487213006259 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 487213006260 FMN binding site [chemical binding]; other site 487213006261 active site 487213006262 catalytic residues [active] 487213006263 substrate binding site [chemical binding]; other site 487213006264 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006265 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006266 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006267 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006268 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006269 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 487213006270 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 487213006272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 487213006273 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 487213006274 dimerization interface [polypeptide binding]; other site 487213006275 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 487213006276 dimer interface [polypeptide binding]; other site 487213006277 phosphorylation site [posttranslational modification] 487213006278 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 487213006279 ATP binding site [chemical binding]; other site 487213006280 Mg2+ binding site [ion binding]; other site 487213006281 G-X-G motif; other site 487213006282 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 487213006283 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 487213006284 active site 487213006285 phosphorylation site [posttranslational modification] 487213006286 intermolecular recognition site; other site 487213006287 dimerization interface [polypeptide binding]; other site 487213006288 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 487213006289 DNA binding site [nucleotide binding] 487213006290 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 487213006291 Clp amino terminal domain; Region: Clp_N; pfam02861 487213006292 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 487213006293 Walker A motif; other site 487213006294 ATP binding site [chemical binding]; other site 487213006295 Walker B motif; other site 487213006296 arginine finger; other site 487213006297 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 487213006298 Walker A motif; other site 487213006299 ATP binding site [chemical binding]; other site 487213006300 Walker B motif; other site 487213006301 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 487213006302 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 487213006303 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 487213006304 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 487213006305 Walker A/P-loop; other site 487213006306 ATP binding site [chemical binding]; other site 487213006307 Q-loop/lid; other site 487213006308 ABC transporter signature motif; other site 487213006309 Walker B; other site 487213006310 D-loop; other site 487213006311 H-loop/switch region; other site 487213006312 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 487213006313 NMT1/THI5 like; Region: NMT1; pfam09084 487213006314 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 487213006315 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 487213006316 Uncharacterized conserved protein [Function unknown]; Region: COG0011 487213006317 Surface antigen [General function prediction only]; Region: COG3942 487213006318 CHAP domain; Region: CHAP; pfam05257 487213006319 Bacterial SH3 domain; Region: SH3_5; pfam08460 487213006320 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 487213006321 Bacterial SH3 domain; Region: SH3_5; pfam08460 487213006322 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 487213006323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 487213006324 replicative DNA helicase; Provisional; Region: PRK05748 487213006325 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 487213006326 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 487213006327 Walker A motif; other site 487213006328 ATP binding site [chemical binding]; other site 487213006329 Walker B motif; other site 487213006330 DNA binding loops [nucleotide binding] 487213006331 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 487213006332 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 487213006333 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 487213006334 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 487213006335 DHH family; Region: DHH; pfam01368 487213006336 DHHA1 domain; Region: DHHA1; pfam02272 487213006337 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 487213006338 30S subunit binding site; other site 487213006339 comF family protein; Region: comF; TIGR00201 487213006340 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 487213006341 active site 487213006342 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 487213006343 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 487213006344 ATP binding site [chemical binding]; other site 487213006345 putative Mg++ binding site [ion binding]; other site 487213006346 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 487213006347 nucleotide binding region [chemical binding]; other site 487213006348 ATP-binding site [chemical binding]; other site 487213006349 Uncharacterized conserved protein [Function unknown]; Region: COG1739 487213006350 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 487213006351 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 487213006352 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 487213006353 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 487213006354 dimer interface [polypeptide binding]; other site 487213006355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 487213006356 catalytic residue [active] 487213006357 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 487213006358 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 487213006359 DDE superfamily endonuclease; Region: DDE_3; pfam13358 487213006360 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 487213006361 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 487213006362 elongation factor Ts; Provisional; Region: tsf; PRK09377 487213006363 UBA/TS-N domain; Region: UBA; pfam00627 487213006364 Elongation factor TS; Region: EF_TS; pfam00889 487213006365 Elongation factor TS; Region: EF_TS; pfam00889 487213006366 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 487213006367 rRNA interaction site [nucleotide binding]; other site 487213006368 S8 interaction site; other site 487213006369 putative laminin-1 binding site; other site 487213006370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 487213006371 Septum formation initiator; Region: DivIC; cl17659 487213006372 Surface antigen [General function prediction only]; Region: COG3942 487213006373 CHAP domain; Region: CHAP; pfam05257 487213006374 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 487213006375 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 487213006376 rod shape-determining protein MreC; Region: MreC; pfam04085 487213006377 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 487213006378 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 487213006379 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 487213006380 Walker A/P-loop; other site 487213006381 ATP binding site [chemical binding]; other site 487213006382 Q-loop/lid; other site 487213006383 ABC transporter signature motif; other site 487213006384 Walker B; other site 487213006385 D-loop; other site 487213006386 H-loop/switch region; other site 487213006387 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 487213006388 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 487213006389 Walker A/P-loop; other site 487213006390 ATP binding site [chemical binding]; other site 487213006391 Q-loop/lid; other site 487213006392 ABC transporter signature motif; other site 487213006393 Walker B; other site 487213006394 D-loop; other site 487213006395 H-loop/switch region; other site 487213006396 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 487213006397 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 487213006398 Helix-turn-helix domain; Region: HTH_25; pfam13413 487213006399 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 487213006400 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 487213006401 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 487213006402 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 487213006403 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 487213006404 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 487213006405 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 487213006406 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 487213006407 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 487213006408 Walker A/P-loop; other site 487213006409 ATP binding site [chemical binding]; other site 487213006410 Q-loop/lid; other site 487213006411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 487213006412 ABC transporter signature motif; other site 487213006413 Walker B; other site 487213006414 D-loop; other site 487213006415 H-loop/switch region; other site 487213006416 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 487213006417 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 487213006418 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 487213006419 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 487213006420 active site 487213006421 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 487213006422 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 487213006423 active site 487213006424 HIGH motif; other site 487213006425 dimer interface [polypeptide binding]; other site 487213006426 KMSKS motif; other site 487213006427 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 487213006428 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213006429 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213006430 ABC transporter; Region: ABC_tran_2; pfam12848 487213006431 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 487213006432 Predicted membrane protein [Function unknown]; Region: COG4485 487213006433 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 487213006434 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 487213006435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 487213006436 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 487213006437 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 487213006438 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 487213006439 active site 487213006440 phosphorylation site [posttranslational modification] 487213006441 intermolecular recognition site; other site 487213006442 dimerization interface [polypeptide binding]; other site 487213006443 LytTr DNA-binding domain; Region: LytTR; pfam04397 487213006444 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 487213006445 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 487213006446 COMC family; Region: ComC; pfam03047 487213006447 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 487213006448 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 487213006449 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 487213006450 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 487213006451 protein binding site [polypeptide binding]; other site 487213006452 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 487213006453 ParB-like nuclease domain; Region: ParBc; pfam02195 487213006454 KorB domain; Region: KorB; pfam08535