-- dump date 20140620_085120 -- class Genbank::misc_feature -- table misc_feature_note -- id note 869306000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 869306000002 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 869306000003 Walker A motif; other site 869306000004 ATP binding site [chemical binding]; other site 869306000005 Walker B motif; other site 869306000006 arginine finger; other site 869306000007 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 869306000008 DnaA box-binding interface [nucleotide binding]; other site 869306000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 869306000010 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 869306000011 putative DNA binding surface [nucleotide binding]; other site 869306000012 dimer interface [polypeptide binding]; other site 869306000013 beta-clamp/clamp loader binding surface; other site 869306000014 beta-clamp/translesion DNA polymerase binding surface; other site 869306000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 869306000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 869306000017 YchF GTPase; Region: YchF; cd01900 869306000018 G1 box; other site 869306000019 GTP/Mg2+ binding site [chemical binding]; other site 869306000020 Switch I region; other site 869306000021 G2 box; other site 869306000022 Switch II region; other site 869306000023 G3 box; other site 869306000024 G4 box; other site 869306000025 G5 box; other site 869306000026 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 869306000027 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 869306000028 putative active site [active] 869306000029 catalytic residue [active] 869306000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 869306000031 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 869306000032 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 869306000033 ATP binding site [chemical binding]; other site 869306000034 putative Mg++ binding site [ion binding]; other site 869306000035 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 869306000036 nucleotide binding region [chemical binding]; other site 869306000037 ATP-binding site [chemical binding]; other site 869306000038 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 869306000039 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 869306000040 RNA binding surface [nucleotide binding]; other site 869306000041 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 869306000042 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 869306000043 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 869306000044 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 869306000045 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 869306000046 Ligand Binding Site [chemical binding]; other site 869306000047 TilS substrate C-terminal domain; Region: TilS_C; smart00977 869306000048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306000049 active site 869306000050 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 869306000051 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 869306000052 Walker A motif; other site 869306000053 ATP binding site [chemical binding]; other site 869306000054 Walker B motif; other site 869306000055 arginine finger; other site 869306000056 Peptidase family M41; Region: Peptidase_M41; pfam01434 869306000057 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 869306000059 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 869306000060 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 869306000061 GDP-binding site [chemical binding]; other site 869306000062 ACT binding site; other site 869306000063 IMP binding site; other site 869306000064 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 869306000065 active site 869306000066 catalytic residues [active] 869306000067 DNA binding site [nucleotide binding] 869306000068 Int/Topo IB signature motif; other site 869306000069 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 869306000070 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 869306000071 active site 869306000072 catalytic site [active] 869306000073 substrate binding site [chemical binding]; other site 869306000074 Domain of unknown function (DUF955); Region: DUF955; pfam06114 869306000075 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306000076 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 869306000077 non-specific DNA binding site [nucleotide binding]; other site 869306000078 salt bridge; other site 869306000079 sequence-specific DNA binding site [nucleotide binding]; other site 869306000080 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 869306000081 non-specific DNA binding site [nucleotide binding]; other site 869306000082 salt bridge; other site 869306000083 sequence-specific DNA binding site [nucleotide binding]; other site 869306000084 Prophage antirepressor [Transcription]; Region: COG3617 869306000085 BRO family, N-terminal domain; Region: Bro-N; smart01040 869306000086 ORF6C domain; Region: ORF6C; pfam10552 869306000087 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 869306000088 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 869306000089 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 869306000090 Walker A motif; other site 869306000091 ATP binding site [chemical binding]; other site 869306000092 Walker B motif; other site 869306000093 arginine finger; other site 869306000094 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 869306000095 INT_SG3, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 3, catalytic domain. The CD contains various predicted bacterial and phage integrase/recombinase sequences for which not much experimental characterization is available; Region: INT_SG3_C; cd01186 869306000096 Int/Topo IB signature motif; other site 869306000097 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 869306000098 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 869306000099 ATP binding site [chemical binding]; other site 869306000100 putative Mg++ binding site [ion binding]; other site 869306000101 Phage-related protein [Function unknown]; Region: COG4695; cl01923 869306000102 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 869306000103 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 869306000104 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 869306000105 Phage capsid family; Region: Phage_capsid; pfam05065 869306000106 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 869306000107 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 869306000108 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 869306000109 dimer interface [polypeptide binding]; other site 869306000110 Phage-related minor tail protein [Function unknown]; Region: COG5280 869306000111 Phage-related protein [Function unknown]; Region: COG5412 869306000112 membrane protein P6; Region: PHA01399 869306000113 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 869306000114 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 869306000115 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 869306000116 toxin secretion/phage lysis holin; Region: holin_tox_secr; TIGR01593 869306000117 Phage holin protein (Holin_LLH); Region: Holin_LLH; pfam09682 869306000118 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306000119 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 869306000120 amidase catalytic site [active] 869306000121 Zn binding residues [ion binding]; other site 869306000122 substrate binding site [chemical binding]; other site 869306000123 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000124 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 869306000125 nucleoside/Zn binding site; other site 869306000126 dimer interface [polypeptide binding]; other site 869306000127 catalytic motif [active] 869306000128 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 869306000129 trimer interface [polypeptide binding]; other site 869306000130 active site 869306000131 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 869306000132 catalytic core [active] 869306000133 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 869306000134 DNA repair protein RadA; Provisional; Region: PRK11823 869306000135 Walker A motif; other site 869306000136 ATP binding site [chemical binding]; other site 869306000137 Walker B motif; other site 869306000138 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 869306000139 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 869306000140 active site clefts [active] 869306000141 zinc binding site [ion binding]; other site 869306000142 dimer interface [polypeptide binding]; other site 869306000143 Frameshift mutation relative to orthologue in TIGR4; TIGR4 orthologue likely to also be a pseudogene due to an independent frameshift mutation in the upstream region 869306000144 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 869306000145 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 869306000146 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306000147 active site 869306000149 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 869306000150 DNA polymerase I; Provisional; Region: PRK05755 869306000151 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 869306000152 active site 869306000153 metal binding site 1 [ion binding]; metal-binding site 869306000154 putative 5' ssDNA interaction site; other site 869306000155 metal binding site 3; metal-binding site 869306000156 metal binding site 2 [ion binding]; metal-binding site 869306000157 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 869306000158 putative DNA binding site [nucleotide binding]; other site 869306000159 putative metal binding site [ion binding]; other site 869306000160 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 869306000161 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 869306000162 active site 869306000163 DNA binding site [nucleotide binding] 869306000164 catalytic site [active] 869306000165 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 869306000166 Predicted membrane protein [Function unknown]; Region: COG2855 869306000167 aromatic amino acid aminotransferase; Validated; Region: PRK07309 869306000168 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 869306000169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306000170 homodimer interface [polypeptide binding]; other site 869306000171 catalytic residue [active] 869306000172 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 869306000173 Recombination protein O N terminal; Region: RecO_N; pfam11967 869306000174 Recombination protein O C terminal; Region: RecO_C; pfam02565 869306000175 putative phosphate acyltransferase; Provisional; Region: PRK05331 869306000178 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 869306000179 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 869306000180 putative active site [active] 869306000181 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306000182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306000183 Walker A/P-loop; other site 869306000184 ATP binding site [chemical binding]; other site 869306000185 Q-loop/lid; other site 869306000186 ABC transporter signature motif; other site 869306000187 Walker B; other site 869306000188 D-loop; other site 869306000189 H-loop/switch region; other site 869306000190 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869306000191 HlyD family secretion protein; Region: HlyD_3; pfam13437 869306000192 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 869306000193 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 869306000194 ATP binding site [chemical binding]; other site 869306000195 active site 869306000196 substrate binding site [chemical binding]; other site 869306000197 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 869306000198 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 869306000199 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 869306000200 dimerization interface [polypeptide binding]; other site 869306000201 ATP binding site [chemical binding]; other site 869306000202 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 869306000203 dimerization interface [polypeptide binding]; other site 869306000204 ATP binding site [chemical binding]; other site 869306000205 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 869306000206 putative active site [active] 869306000207 catalytic triad [active] 869306000208 amidophosphoribosyltransferase; Provisional; Region: PRK07272 869306000209 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 869306000210 active site 869306000211 tetramer interface [polypeptide binding]; other site 869306000212 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306000213 active site 869306000214 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 869306000215 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 869306000216 dimerization interface [polypeptide binding]; other site 869306000217 putative ATP binding site [chemical binding]; other site 869306000218 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 869306000219 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 869306000220 active site 869306000221 substrate binding site [chemical binding]; other site 869306000222 cosubstrate binding site; other site 869306000223 catalytic site [active] 869306000224 VanZ like family; Region: VanZ; pfam04892 869306000225 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 869306000226 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 869306000227 purine monophosphate binding site [chemical binding]; other site 869306000228 dimer interface [polypeptide binding]; other site 869306000229 putative catalytic residues [active] 869306000230 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 869306000231 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 869306000232 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 869306000233 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 869306000234 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 869306000235 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 869306000236 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 869306000237 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 869306000238 ATP-grasp domain; Region: ATP-grasp; pfam02222 869306000239 adenylosuccinate lyase; Provisional; Region: PRK07492 869306000240 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 869306000241 tetramer interface [polypeptide binding]; other site 869306000242 active site 869306000243 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869306000244 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 869306000245 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 869306000246 active site 869306000247 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 869306000248 active site 869306000249 G5 domain; Region: G5; pfam07501 869306000250 G5 domain; Region: G5; pfam07501 869306000251 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 869306000252 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869306000253 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306000254 DNA-binding site [nucleotide binding]; DNA binding site 869306000255 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 869306000256 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 869306000257 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 869306000258 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 869306000259 active site 869306000260 phosphorylation site [posttranslational modification] 869306000261 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 869306000262 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869306000263 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 869306000264 active pocket/dimerization site; other site 869306000265 active site 869306000266 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 869306000267 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 869306000268 dimer interface [polypeptide binding]; other site 869306000269 active site 869306000270 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 869306000271 putative active site [active] 869306000272 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 869306000273 active site 869306000274 catalytic residues [active] 869306000275 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 869306000276 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 869306000277 putative metal binding site [ion binding]; other site 869306000278 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 869306000279 active site 869306000280 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cl00846 869306000281 putative homodimer interface [polypeptide binding]; other site 869306000282 putative homotetramer interface [polypeptide binding]; other site 869306000283 putative allosteric switch controlling residues; other site 869306000284 putative metal binding site [ion binding]; other site 869306000285 putative homodimer-homodimer interface [polypeptide binding]; other site 869306000286 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 869306000287 active site residue [active] 869306000288 Similar to C-terminus of a protein from other streptococci 869306000289 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 869306000290 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 869306000291 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 869306000292 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 869306000293 TrkA-N domain; Region: TrkA_N; pfam02254 869306000295 Fibronectin-binding repeat; Region: SSURE; pfam11966 869306000296 Fibronectin-binding repeat; Region: SSURE; pfam11966 869306000297 Fibronectin-binding repeat; Region: SSURE; pfam11966 869306000298 Fibronectin-binding repeat; Region: SSURE; pfam11966 869306000299 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306000300 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 869306000301 active site 869306000302 phosphorylation site [posttranslational modification] 869306000303 intermolecular recognition site; other site 869306000304 dimerization interface [polypeptide binding]; other site 869306000305 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 869306000306 DNA binding site [nucleotide binding] 869306000307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869306000308 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 869306000309 dimerization interface [polypeptide binding]; other site 869306000310 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 869306000311 dimer interface [polypeptide binding]; other site 869306000312 phosphorylation site [posttranslational modification] 869306000313 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 869306000314 ATP binding site [chemical binding]; other site 869306000315 Mg2+ binding site [ion binding]; other site 869306000316 G-X-G motif; other site 869306000317 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 869306000318 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 869306000319 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 869306000320 RNA binding surface [nucleotide binding]; other site 869306000323 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 869306000324 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 869306000325 dimer interface [polypeptide binding]; other site 869306000326 conserved gate region; other site 869306000327 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 869306000328 ABC-ATPase subunit interface; other site 869306000329 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869306000330 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 869306000331 dimer interface [polypeptide binding]; other site 869306000332 conserved gate region; other site 869306000333 putative PBP binding loops; other site 869306000334 ABC-ATPase subunit interface; other site 869306000335 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869306000336 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 869306000337 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 869306000338 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 869306000339 active site residue [active] 869306000340 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 869306000341 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 869306000342 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 869306000343 Predicted membrane protein [Function unknown]; Region: COG4709 869306000344 Predicted transcriptional regulators [Transcription]; Region: COG1695 869306000345 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 869306000346 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 869306000347 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 869306000348 putative substrate translocation pore; other site 869306000349 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 869306000350 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 869306000351 Ligand binding site; other site 869306000352 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 869306000353 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869306000354 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 869306000355 NAD(P) binding site [chemical binding]; other site 869306000356 homodimer interface [polypeptide binding]; other site 869306000357 substrate binding site [chemical binding]; other site 869306000358 active site 869306000359 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 869306000360 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 869306000361 active site 869306000362 motif I; other site 869306000363 motif II; other site 869306000364 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 869306000365 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 869306000366 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 869306000367 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 869306000368 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 869306000369 putative L-serine binding site [chemical binding]; other site 869306000370 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 869306000371 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 869306000372 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306000373 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 869306000374 non-specific DNA binding site [nucleotide binding]; other site 869306000375 salt bridge; other site 869306000376 sequence-specific DNA binding site [nucleotide binding]; other site 869306000377 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 869306000378 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 869306000379 putative active site [active] 869306000380 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306000381 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306000382 Walker A/P-loop; other site 869306000383 ATP binding site [chemical binding]; other site 869306000384 Q-loop/lid; other site 869306000385 ABC transporter signature motif; other site 869306000386 Walker B; other site 869306000387 D-loop; other site 869306000388 H-loop/switch region; other site 869306000389 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869306000390 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 869306000391 HlyD family secretion protein; Region: HlyD_3; pfam13437 869306000392 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 869306000393 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869306000394 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000395 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000396 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000397 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869306000398 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000399 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000400 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000401 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869306000402 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000403 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306000404 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 869306000405 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 869306000406 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 869306000407 nudix motif; other site 869306000408 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 869306000409 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 869306000410 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 869306000411 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 869306000412 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 869306000413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 869306000414 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 869306000415 hypothetical protein; Provisional; Region: PRK13667 869306000417 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 869306000418 Glycoprotease family; Region: Peptidase_M22; pfam00814 869306000419 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 869306000420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306000421 Coenzyme A binding pocket [chemical binding]; other site 869306000422 UGMP family protein; Validated; Region: PRK09604 869306000423 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 869306000424 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 869306000426 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 869306000427 Helix-turn-helix domain; Region: HTH_38; pfam13936 869306000428 Transposase; Region: DDE_Tnp_ISL3; pfam01610 869306000431 Apparently inactivated by an internal deletion relative to some orthologues 869306000432 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306000433 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 869306000434 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306000435 Walker A/P-loop; other site 869306000436 ATP binding site [chemical binding]; other site 869306000437 Q-loop/lid; other site 869306000438 ABC transporter signature motif; other site 869306000439 Walker B; other site 869306000440 D-loop; other site 869306000441 H-loop/switch region; other site 869306000444 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 869306000448 H+ Antiporter protein; Region: 2A0121; TIGR00900 869306000449 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 869306000450 Predicted membrane protein [Function unknown]; Region: COG4392 869306000451 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306000452 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 869306000453 substrate binding pocket [chemical binding]; other site 869306000454 membrane-bound complex binding site; other site 869306000455 hinge residues; other site 869306000456 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 869306000457 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 869306000458 hypothetical protein; Provisional; Region: PRK06446 869306000459 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 869306000460 metal binding site [ion binding]; metal-binding site 869306000461 dimer interface [polypeptide binding]; other site 869306000462 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 869306000463 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 869306000464 Walker A/P-loop; other site 869306000465 ATP binding site [chemical binding]; other site 869306000466 Q-loop/lid; other site 869306000467 ABC transporter signature motif; other site 869306000468 Walker B; other site 869306000469 D-loop; other site 869306000470 H-loop/switch region; other site 869306000471 NIL domain; Region: NIL; pfam09383 869306000472 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 869306000473 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 869306000474 Protein of unknown function, DUF624; Region: DUF624; cl02369 869306000475 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869306000476 HAMP domain; Region: HAMP; pfam00672 869306000477 Histidine kinase; Region: His_kinase; pfam06580 869306000478 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 869306000479 ATP binding site [chemical binding]; other site 869306000480 Mg2+ binding site [ion binding]; other site 869306000481 G-X-G motif; other site 869306000482 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 869306000483 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 869306000484 active site 869306000485 phosphorylation site [posttranslational modification] 869306000486 intermolecular recognition site; other site 869306000487 dimerization interface [polypeptide binding]; other site 869306000488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869306000489 flavoprotein NrdI; Provisional; Region: PRK02551 869306000490 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 869306000491 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 869306000492 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869306000493 LytTr DNA-binding domain; Region: LytTR; smart00850 869306000494 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 869306000495 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 869306000496 ATP binding site [chemical binding]; other site 869306000497 Mg2+ binding site [ion binding]; other site 869306000498 G-X-G motif; other site 869306000499 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 869306000500 ATP binding site [chemical binding]; other site 869306000501 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 869306000502 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 869306000503 homopentamer interface [polypeptide binding]; other site 869306000504 active site 869306000505 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 869306000506 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 869306000507 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 869306000508 dimerization interface [polypeptide binding]; other site 869306000509 active site 869306000510 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 869306000511 Lumazine binding domain; Region: Lum_binding; pfam00677 869306000512 Lumazine binding domain; Region: Lum_binding; pfam00677 869306000513 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 869306000514 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 869306000515 catalytic motif [active] 869306000516 Zn binding site [ion binding]; other site 869306000517 RibD C-terminal domain; Region: RibD_C; cl17279 869306000518 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 869306000519 RuvA N terminal domain; Region: RuvA_N; pfam01330 869306000520 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 869306000521 CAAX protease self-immunity; Region: Abi; pfam02517 869306000522 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 869306000523 putative dimer interface [polypeptide binding]; other site 869306000524 catalytic triad [active] 869306000525 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 869306000526 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 869306000527 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 869306000528 Cl binding site [ion binding]; other site 869306000529 oligomer interface [polypeptide binding]; other site 869306000530 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 869306000531 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 869306000532 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 869306000533 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 869306000534 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 869306000535 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 869306000536 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 869306000537 active site 869306000538 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 869306000539 ArsC family; Region: ArsC; pfam03960 869306000540 putative catalytic residues [active] 869306000541 thiol/disulfide switch; other site 869306000542 hypothetical protein; Provisional; Region: PRK05473 869306000543 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 869306000544 hypothetical protein; Provisional; Region: PRK13678 869306000545 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 869306000546 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869306000547 Bacterial lipoprotein; Region: DUF3642; pfam12182 869306000548 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 869306000549 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 869306000550 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 869306000551 putative active site [active] 869306000552 catalytic site [active] 869306000553 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 869306000554 putative active site [active] 869306000555 catalytic site [active] 869306000556 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 869306000557 ATP cone domain; Region: ATP-cone; pfam03477 869306000558 Class III ribonucleotide reductase; Region: RNR_III; cd01675 869306000559 effector binding site; other site 869306000560 active site 869306000561 Zn binding site [ion binding]; other site 869306000562 glycine loop; other site 869306000563 Predicted acetyltransferase [General function prediction only]; Region: COG3981 869306000564 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306000565 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 869306000566 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 869306000567 FeS/SAM binding site; other site 869306000568 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 869306000569 active site 869306000570 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 869306000571 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 869306000572 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 869306000573 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 869306000574 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 869306000575 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 869306000576 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 869306000577 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 869306000578 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 869306000579 putative translocon binding site; other site 869306000580 protein-rRNA interface [nucleotide binding]; other site 869306000581 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 869306000582 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 869306000583 G-X-X-G motif; other site 869306000584 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 869306000585 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 869306000586 23S rRNA interface [nucleotide binding]; other site 869306000587 5S rRNA interface [nucleotide binding]; other site 869306000588 putative antibiotic binding site [chemical binding]; other site 869306000589 L25 interface [polypeptide binding]; other site 869306000590 L27 interface [polypeptide binding]; other site 869306000591 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 869306000592 23S rRNA interface [nucleotide binding]; other site 869306000593 putative translocon interaction site; other site 869306000594 signal recognition particle (SRP54) interaction site; other site 869306000595 L23 interface [polypeptide binding]; other site 869306000596 trigger factor interaction site; other site 869306000597 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 869306000598 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 869306000599 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 869306000600 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 869306000601 RNA binding site [nucleotide binding]; other site 869306000602 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 869306000603 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 869306000604 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 869306000605 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 869306000606 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 869306000607 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 869306000608 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 869306000609 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 869306000610 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 869306000611 5S rRNA interface [nucleotide binding]; other site 869306000612 L27 interface [polypeptide binding]; other site 869306000613 23S rRNA interface [nucleotide binding]; other site 869306000614 L5 interface [polypeptide binding]; other site 869306000615 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 869306000616 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 869306000617 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 869306000618 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 869306000619 23S rRNA binding site [nucleotide binding]; other site 869306000620 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 869306000621 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 869306000622 SecY translocase; Region: SecY; pfam00344 869306000623 adenylate kinase; Reviewed; Region: adk; PRK00279 869306000624 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 869306000625 AMP-binding site [chemical binding]; other site 869306000626 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 869306000627 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 869306000628 rRNA binding site [nucleotide binding]; other site 869306000629 predicted 30S ribosome binding site; other site 869306000630 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 869306000631 30S ribosomal protein S13; Region: bact_S13; TIGR03631 869306000632 30S ribosomal protein S11; Validated; Region: PRK05309 869306000633 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 869306000634 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 869306000635 alphaNTD homodimer interface [polypeptide binding]; other site 869306000636 alphaNTD - beta interaction site [polypeptide binding]; other site 869306000637 alphaNTD - beta' interaction site [polypeptide binding]; other site 869306000638 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 869306000639 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 869306000640 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 869306000641 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 869306000642 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 869306000643 catalytic core [active] 869306000644 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869306000645 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 869306000646 dimer interface [polypeptide binding]; other site 869306000647 conserved gate region; other site 869306000648 putative PBP binding loops; other site 869306000649 ABC-ATPase subunit interface; other site 869306000650 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 869306000651 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869306000652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306000653 Walker A/P-loop; other site 869306000654 ATP binding site [chemical binding]; other site 869306000655 Q-loop/lid; other site 869306000656 ABC transporter signature motif; other site 869306000657 Walker B; other site 869306000658 D-loop; other site 869306000659 H-loop/switch region; other site 869306000660 TOBE domain; Region: TOBE_2; pfam08402 869306000661 CDS apparently disrupted by a RUP element insertion 869306000662 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869306000663 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869306000664 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 869306000665 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869306000666 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 869306000667 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869306000668 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 869306000669 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 869306000670 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 869306000671 active site 869306000672 methionine cluster; other site 869306000673 phosphorylation site [posttranslational modification] 869306000674 metal binding site [ion binding]; metal-binding site 869306000675 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 869306000676 active site 869306000677 P-loop; other site 869306000678 phosphorylation site [posttranslational modification] 869306000679 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869306000680 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869306000681 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 869306000682 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 869306000683 dimer interface [polypeptide binding]; other site 869306000684 active site 869306000685 glycine loop; other site 869306000686 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 869306000687 active site 869306000688 intersubunit interactions; other site 869306000689 catalytic residue [active] 869306000690 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 869306000691 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 869306000692 dimer interface [polypeptide binding]; other site 869306000693 active site 869306000694 metal binding site [ion binding]; metal-binding site 869306000695 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 869306000696 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 869306000697 HIGH motif; other site 869306000698 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 869306000699 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869306000700 active site 869306000701 KMSKS motif; other site 869306000702 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 869306000703 tRNA binding surface [nucleotide binding]; other site 869306000704 GNAT acetyltransferase gene disrupted by a RUP insertion and a frameshift mutation 869306000705 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 869306000706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306000707 Coenzyme A binding pocket [chemical binding]; other site 869306000708 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 869306000709 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 869306000710 Walker A motif; other site 869306000711 ATP binding site [chemical binding]; other site 869306000712 Walker B motif; other site 869306000713 arginine finger; other site 869306000714 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 869306000716 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 869306000717 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 869306000718 catalytic residue [active] 869306000719 putative FPP diphosphate binding site; other site 869306000720 putative FPP binding hydrophobic cleft; other site 869306000721 dimer interface [polypeptide binding]; other site 869306000722 putative IPP diphosphate binding site; other site 869306000723 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 869306000724 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 869306000725 RIP metalloprotease RseP; Region: TIGR00054 869306000726 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 869306000727 active site 869306000728 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 869306000729 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 869306000730 putative substrate binding region [chemical binding]; other site 869306000731 prolyl-tRNA synthetase; Provisional; Region: PRK09194 869306000732 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 869306000733 dimer interface [polypeptide binding]; other site 869306000734 motif 1; other site 869306000735 active site 869306000736 motif 2; other site 869306000737 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 869306000738 putative deacylase active site [active] 869306000739 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 869306000740 active site 869306000741 motif 3; other site 869306000742 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 869306000743 anticodon binding site; other site 869306000744 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869306000745 beta-galactosidase; Region: BGL; TIGR03356 869306000746 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 869306000747 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 869306000748 glutaminase active site [active] 869306000749 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 869306000750 dimer interface [polypeptide binding]; other site 869306000751 active site 869306000752 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 869306000753 dimer interface [polypeptide binding]; other site 869306000754 active site 869306000755 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 869306000756 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 869306000757 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 869306000758 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 869306000759 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 869306000760 carbohydrate binding site [chemical binding]; other site 869306000761 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 869306000762 carbohydrate binding site [chemical binding]; other site 869306000763 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 869306000764 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 869306000765 Ca binding site [ion binding]; other site 869306000766 active site 869306000767 catalytic site [active] 869306000768 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 869306000769 S17 interaction site [polypeptide binding]; other site 869306000770 S8 interaction site; other site 869306000771 16S rRNA interaction site [nucleotide binding]; other site 869306000772 streptomycin interaction site [chemical binding]; other site 869306000773 23S rRNA interaction site [nucleotide binding]; other site 869306000774 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 869306000775 30S ribosomal protein S7; Validated; Region: PRK05302 869306000776 elongation factor G; Reviewed; Region: PRK00007 869306000777 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 869306000778 G1 box; other site 869306000779 putative GEF interaction site [polypeptide binding]; other site 869306000780 GTP/Mg2+ binding site [chemical binding]; other site 869306000781 Switch I region; other site 869306000782 G2 box; other site 869306000783 G3 box; other site 869306000784 Switch II region; other site 869306000785 G4 box; other site 869306000786 G5 box; other site 869306000787 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 869306000788 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 869306000789 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 869306000790 DNA polymerase III PolC; Validated; Region: polC; PRK00448 869306000791 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 869306000792 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 869306000793 generic binding surface II; other site 869306000794 generic binding surface I; other site 869306000795 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 869306000796 active site 869306000797 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869306000798 active site 869306000799 catalytic site [active] 869306000800 substrate binding site [chemical binding]; other site 869306000801 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 869306000802 putative PHP Thumb interface [polypeptide binding]; other site 869306000803 active site 869306000804 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 869306000805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 869306000806 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 869306000807 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 869306000808 Predicted membrane protein [Function unknown]; Region: COG2261 869306000809 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869306000810 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 869306000811 RNA binding surface [nucleotide binding]; other site 869306000812 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 869306000813 active site 869306000814 uracil binding [chemical binding]; other site 869306000815 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 869306000816 trimer interface [polypeptide binding]; other site 869306000817 active site 869306000818 G bulge; other site 869306000819 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869306000820 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 869306000821 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 869306000822 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 869306000823 active pocket/dimerization site; other site 869306000824 active site 869306000825 phosphorylation site [posttranslational modification] 869306000826 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 869306000827 active site 869306000828 phosphorylation site [posttranslational modification] 869306000829 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 869306000830 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 869306000831 NAD binding site [chemical binding]; other site 869306000832 substrate binding site [chemical binding]; other site 869306000833 catalytic Zn binding site [ion binding]; other site 869306000834 tetramer interface [polypeptide binding]; other site 869306000835 structural Zn binding site [ion binding]; other site 869306000836 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869306000837 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 869306000838 active site 869306000839 motif I; other site 869306000840 motif II; other site 869306000841 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 869306000842 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 869306000843 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 869306000844 dihydropteroate synthase; Region: DHPS; TIGR01496 869306000845 substrate binding pocket [chemical binding]; other site 869306000846 dimer interface [polypeptide binding]; other site 869306000847 inhibitor binding site; inhibition site 869306000848 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 869306000849 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869306000850 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869306000851 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 869306000852 homodecamer interface [polypeptide binding]; other site 869306000853 GTP cyclohydrolase I; Provisional; Region: PLN03044 869306000854 active site 869306000855 putative catalytic site residues [active] 869306000856 zinc binding site [ion binding]; other site 869306000857 GTP-CH-I/GFRP interaction surface; other site 869306000858 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 869306000859 homooctamer interface [polypeptide binding]; other site 869306000860 active site 869306000861 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 869306000862 catalytic center binding site [active] 869306000863 ATP binding site [chemical binding]; other site 869306000864 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 869306000865 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 869306000866 23S rRNA interface [nucleotide binding]; other site 869306000867 L3 interface [polypeptide binding]; other site 869306000868 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 869306000869 Uncharacterized conserved protein [Function unknown]; Region: COG1359 869306000870 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 869306000871 beta-galactosidase; Region: BGL; TIGR03356 869306000872 Uncharacterized conserved protein [Function unknown]; Region: COG4095 869306000873 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 869306000874 active site 869306000875 P-loop; other site 869306000876 phosphorylation site [posttranslational modification] 869306000877 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869306000878 HTH domain; Region: HTH_11; pfam08279 869306000879 Mga helix-turn-helix domain; Region: Mga; pfam05043 869306000880 PRD domain; Region: PRD; pfam00874 869306000881 PRD domain; Region: PRD; pfam00874 869306000882 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 869306000883 active site 869306000884 P-loop; other site 869306000885 phosphorylation site [posttranslational modification] 869306000886 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 869306000887 active site 869306000888 phosphorylation site [posttranslational modification] 869306000889 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 869306000890 methionine cluster; other site 869306000891 active site 869306000892 phosphorylation site [posttranslational modification] 869306000893 metal binding site [ion binding]; metal-binding site 869306000894 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869306000895 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869306000898 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 869306000899 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 869306000900 putative active site [active] 869306000901 putative catalytic site [active] 869306000902 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 869306000903 catalytic residues [active] 869306000904 dimer interface [polypeptide binding]; other site 869306000907 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 869306000908 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 869306000909 active site 869306000910 intersubunit interface [polypeptide binding]; other site 869306000911 catalytic residue [active] 869306000912 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 869306000913 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 869306000914 substrate binding site [chemical binding]; other site 869306000915 ATP binding site [chemical binding]; other site 869306000916 hypothetical protein; Provisional; Region: PRK09273 869306000917 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 869306000918 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 869306000919 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 869306000920 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 869306000921 NADP binding site [chemical binding]; other site 869306000922 homodimer interface [polypeptide binding]; other site 869306000923 active site 869306000924 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 869306000925 active pocket/dimerization site; other site 869306000926 active site 869306000927 phosphorylation site [posttranslational modification] 869306000928 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 869306000929 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 869306000930 active site 869306000931 phosphorylation site [posttranslational modification] 869306000932 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 869306000933 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869306000934 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 869306000935 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 869306000936 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869306000937 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869306000938 DNA binding site [nucleotide binding] 869306000939 domain linker motif; other site 869306000940 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 869306000941 putative dimerization interface [polypeptide binding]; other site 869306000942 putative ligand binding site [chemical binding]; other site 869306000943 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 869306000944 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 869306000945 non-specific DNA binding site [nucleotide binding]; other site 869306000946 salt bridge; other site 869306000947 sequence-specific DNA binding site [nucleotide binding]; other site 869306000948 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 869306000949 MraW methylase family; Region: Methyltransf_5; pfam01795 869306000950 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 869306000951 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 869306000952 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 869306000953 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 869306000954 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 869306000955 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cd06573 869306000956 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 869306000957 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 869306000958 Mg++ binding site [ion binding]; other site 869306000959 putative catalytic motif [active] 869306000960 putative substrate binding site [chemical binding]; other site 869306000961 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 869306000962 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 869306000963 Walker A motif; other site 869306000964 ATP binding site [chemical binding]; other site 869306000965 Walker B motif; other site 869306000966 arginine finger; other site 869306000967 UvrB/uvrC motif; Region: UVR; pfam02151 869306000968 MoxR-like ATPases [General function prediction only]; Region: COG0714 869306000969 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 869306000970 Walker A motif; other site 869306000971 ATP binding site [chemical binding]; other site 869306000972 Walker B motif; other site 869306000973 arginine finger; other site 869306000974 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869306000975 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 869306000976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 869306000977 hypothetical protein; Provisional; Region: PRK13663 869306000978 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 869306000979 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 869306000980 Ca binding site [ion binding]; other site 869306000981 active site 869306000982 catalytic site [active] 869306000987 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 869306000988 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 869306000990 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 869306000991 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 869306000992 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 869306000993 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 869306000994 Hyaluronan synthases catalyze polymerization of hyaluronan; Region: GT2_HAS; cd06434 869306000995 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 869306000996 DXD motif; other site 869306000997 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 869306000998 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 869306000999 active site 869306001000 tetramer interface; other site 869306001001 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 869306001002 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 869306001003 active site 869306001004 substrate binding site [chemical binding]; other site 869306001005 metal binding site [ion binding]; metal-binding site 869306001006 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 869306001007 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869306001008 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 869306001009 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869306001010 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 869306001011 Transglycosylase; Region: Transgly; pfam00912 869306001012 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 869306001013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869306001014 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 869306001015 hypothetical protein; Provisional; Region: PRK13660 869306001016 cell division protein GpsB; Provisional; Region: PRK14127 869306001017 DivIVA domain; Region: DivI1A_domain; TIGR03544 869306001018 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 869306001019 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 869306001020 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 869306001021 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 869306001022 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 869306001023 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 869306001024 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306001025 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 869306001026 active site 869306001027 phosphorylation site [posttranslational modification] 869306001028 intermolecular recognition site; other site 869306001029 dimerization interface [polypeptide binding]; other site 869306001030 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 869306001031 DNA binding site [nucleotide binding] 869306001032 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306001033 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306001034 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 869306001035 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 869306001036 active site 869306001037 zinc binding site [ion binding]; other site 869306001038 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 869306001039 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 869306001040 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869306001041 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869306001042 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 869306001043 diphosphomevalonate decarboxylase; Region: PLN02407 869306001044 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 869306001045 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869306001046 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 869306001047 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 869306001048 homotetramer interface [polypeptide binding]; other site 869306001049 FMN binding site [chemical binding]; other site 869306001050 homodimer contacts [polypeptide binding]; other site 869306001051 putative active site [active] 869306001052 putative substrate binding site [chemical binding]; other site 869306001053 Predicted membrane protein [Function unknown]; Region: COG4758 869306001054 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 869306001055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869306001056 Histidine kinase; Region: HisKA_3; pfam07730 869306001057 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 869306001058 ATP binding site [chemical binding]; other site 869306001059 Mg2+ binding site [ion binding]; other site 869306001060 G-X-G motif; other site 869306001061 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 869306001062 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 869306001063 active site 869306001064 phosphorylation site [posttranslational modification] 869306001065 intermolecular recognition site; other site 869306001066 dimerization interface [polypeptide binding]; other site 869306001067 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 869306001068 DNA binding residues [nucleotide binding] 869306001069 dimerization interface [polypeptide binding]; other site 869306001070 Appears to have been disrupted through the insertion of a BOX element; Gene model based on TIGR4 annotation and Fasta sequence similarity 869306001072 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 869306001073 DNA binding site [nucleotide binding] 869306001074 Int/Topo IB signature motif; other site 869306001075 active site 869306001076 trigger factor; Provisional; Region: tig; PRK01490 869306001077 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 869306001078 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 869306001079 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 869306001080 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 869306001081 DNA binding site [nucleotide binding] 869306001082 AAA domain; Region: AAA_30; pfam13604 869306001083 Family description; Region: UvrD_C_2; pfam13538 869306001084 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 869306001085 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 869306001086 Catalytic site [active] 869306001087 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 869306001088 ribonuclease HIII; Provisional; Region: PRK00996 869306001089 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 869306001090 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 869306001091 RNA/DNA hybrid binding site [nucleotide binding]; other site 869306001092 active site 869306001093 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 869306001094 Colicin V production protein; Region: Colicin_V; pfam02674 869306001095 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 869306001096 MutS domain III; Region: MutS_III; pfam05192 869306001097 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 869306001098 Walker A/P-loop; other site 869306001099 ATP binding site [chemical binding]; other site 869306001100 Q-loop/lid; other site 869306001101 ABC transporter signature motif; other site 869306001102 Walker B; other site 869306001103 D-loop; other site 869306001104 H-loop/switch region; other site 869306001105 Smr domain; Region: Smr; pfam01713 869306001106 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 869306001107 amino acid carrier protein; Region: agcS; TIGR00835 869306001108 Uncharacterized conserved protein [Function unknown]; Region: COG2128 869306001109 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 869306001110 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 869306001111 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 869306001112 gating phenylalanine in ion channel; other site 869306001113 seryl-tRNA synthetase; Provisional; Region: PRK05431 869306001114 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 869306001115 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 869306001116 dimer interface [polypeptide binding]; other site 869306001117 active site 869306001118 motif 1; other site 869306001119 motif 2; other site 869306001120 motif 3; other site 869306001121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 869306001122 aspartate kinase; Reviewed; Region: PRK09034 869306001123 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 869306001124 putative catalytic residues [active] 869306001125 putative nucleotide binding site [chemical binding]; other site 869306001126 putative aspartate binding site [chemical binding]; other site 869306001127 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 869306001128 allosteric regulatory residue; other site 869306001129 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 869306001130 enoyl-CoA hydratase; Provisional; Region: PRK07260 869306001131 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 869306001132 substrate binding site [chemical binding]; other site 869306001133 oxyanion hole (OAH) forming residues; other site 869306001134 trimer interface [polypeptide binding]; other site 869306001135 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 869306001136 MarR family; Region: MarR_2; pfam12802 869306001137 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 869306001138 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 869306001139 dimer interface [polypeptide binding]; other site 869306001140 active site 869306001141 CoA binding pocket [chemical binding]; other site 869306001142 acyl carrier protein; Provisional; Region: acpP; PRK00982 869306001143 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 869306001144 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 869306001145 FMN binding site [chemical binding]; other site 869306001146 substrate binding site [chemical binding]; other site 869306001147 putative catalytic residue [active] 869306001148 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 869306001149 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 869306001150 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 869306001151 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 869306001152 NAD(P) binding site [chemical binding]; other site 869306001153 homotetramer interface [polypeptide binding]; other site 869306001154 homodimer interface [polypeptide binding]; other site 869306001155 active site 869306001156 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 869306001157 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 869306001158 dimer interface [polypeptide binding]; other site 869306001159 active site 869306001160 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 869306001161 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 869306001162 carboxyltransferase (CT) interaction site; other site 869306001163 biotinylation site [posttranslational modification]; other site 869306001164 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 869306001165 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 869306001166 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869306001167 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 869306001168 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 869306001169 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 869306001170 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 869306001171 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 869306001172 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 869306001173 CAAX protease self-immunity; Region: Abi; pfam02517 869306001175 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 869306001176 putative RNA binding site [nucleotide binding]; other site 869306001177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869306001178 elongation factor P; Validated; Region: PRK00529 869306001179 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 869306001180 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 869306001181 RNA binding site [nucleotide binding]; other site 869306001182 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 869306001183 RNA binding site [nucleotide binding]; other site 869306001184 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 869306001185 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 869306001186 GatB domain; Region: GatB_Yqey; pfam02637 869306001187 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 869306001188 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 869306001189 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 869306001190 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 869306001191 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 869306001192 G1 box; other site 869306001193 putative GEF interaction site [polypeptide binding]; other site 869306001194 GTP/Mg2+ binding site [chemical binding]; other site 869306001195 Switch I region; other site 869306001196 G2 box; other site 869306001197 G3 box; other site 869306001198 Switch II region; other site 869306001199 G4 box; other site 869306001200 G5 box; other site 869306001201 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 869306001203 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 869306001204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869306001205 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 869306001206 DAK2 domain; Region: Dak2; pfam02734 869306001207 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 869306001208 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 869306001209 PYR/PP interface [polypeptide binding]; other site 869306001210 dimer interface [polypeptide binding]; other site 869306001211 TPP binding site [chemical binding]; other site 869306001212 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 869306001213 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 869306001214 TPP-binding site [chemical binding]; other site 869306001215 dimer interface [polypeptide binding]; other site 869306001216 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 869306001217 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 869306001218 putative valine binding site [chemical binding]; other site 869306001219 dimer interface [polypeptide binding]; other site 869306001220 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 869306001221 ketol-acid reductoisomerase; Provisional; Region: PRK05479 869306001222 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 869306001223 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 869306001225 threonine dehydratase; Validated; Region: PRK08639 869306001226 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 869306001227 tetramer interface [polypeptide binding]; other site 869306001228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306001229 catalytic residue [active] 869306001230 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 869306001231 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869306001232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306001233 Walker A/P-loop; other site 869306001234 ATP binding site [chemical binding]; other site 869306001235 Q-loop/lid; other site 869306001236 ABC transporter signature motif; other site 869306001237 Walker B; other site 869306001238 D-loop; other site 869306001239 H-loop/switch region; other site 869306001240 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 869306001241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306001242 substrate binding pocket [chemical binding]; other site 869306001243 membrane-bound complex binding site; other site 869306001244 hinge residues; other site 869306001245 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 869306001246 dimer interface [polypeptide binding]; other site 869306001247 conserved gate region; other site 869306001248 putative PBP binding loops; other site 869306001249 ABC-ATPase subunit interface; other site 869306001250 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 869306001252 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 869306001253 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 869306001254 active site 869306001255 DNA polymerase IV; Validated; Region: PRK02406 869306001256 DNA binding site [nucleotide binding] 869306001257 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 869306001258 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 869306001260 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 869306001261 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 869306001262 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 869306001263 TrkA-N domain; Region: TrkA_N; pfam02254 869306001264 TrkA-C domain; Region: TrkA_C; pfam02080 869306001265 TrkA-N domain; Region: TrkA_N; pfam02254 869306001266 TrkA-C domain; Region: TrkA_C; pfam02080 869306001267 Uncharacterized conserved protein [Function unknown]; Region: COG1912 869306001268 hypothetical protein; Provisional; Region: PRK13661 869306001269 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869306001270 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869306001271 Walker A/P-loop; other site 869306001272 ATP binding site [chemical binding]; other site 869306001273 Q-loop/lid; other site 869306001274 ABC transporter signature motif; other site 869306001275 Walker B; other site 869306001276 D-loop; other site 869306001277 H-loop/switch region; other site 869306001278 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 869306001279 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869306001280 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869306001281 Walker A/P-loop; other site 869306001282 ATP binding site [chemical binding]; other site 869306001283 Q-loop/lid; other site 869306001284 ABC transporter signature motif; other site 869306001285 Walker B; other site 869306001286 D-loop; other site 869306001287 H-loop/switch region; other site 869306001288 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869306001289 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 869306001290 Predicted membrane protein [Function unknown]; Region: COG3601 869306001291 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 869306001292 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 869306001293 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 869306001294 active site 869306001295 ParB-like nuclease domain; Region: ParBc; cl02129 869306001296 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306001297 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869306001298 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 869306001299 CTP synthetase; Validated; Region: pyrG; PRK05380 869306001300 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 869306001301 Catalytic site [active] 869306001302 active site 869306001303 UTP binding site [chemical binding]; other site 869306001304 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 869306001305 active site 869306001306 putative oxyanion hole; other site 869306001307 catalytic triad [active] 869306001308 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 869306001309 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 869306001310 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 869306001311 PhoU domain; Region: PhoU; pfam01895 869306001312 PhoU domain; Region: PhoU; pfam01895 869306001313 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869306001314 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 869306001315 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 869306001316 putative active site [active] 869306001317 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869306001318 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 869306001319 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 869306001320 G5 domain; Region: G5; pfam07501 869306001321 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 869306001322 Phosphoglycerate kinase; Region: PGK; pfam00162 869306001323 substrate binding site [chemical binding]; other site 869306001324 hinge regions; other site 869306001325 ADP binding site [chemical binding]; other site 869306001326 catalytic site [active] 869306001327 Predicted membrane protein [Function unknown]; Region: COG4129 869306001328 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 869306001329 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 869306001330 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 869306001331 DNA binding residues [nucleotide binding] 869306001332 putative dimer interface [polypeptide binding]; other site 869306001333 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 869306001334 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 869306001335 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 869306001336 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 869306001337 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869306001338 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 869306001339 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869306001340 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 869306001341 VanD integrase, IntD, and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases including those similar to IntD, a putative integrase-like protein, a component...; Region: INT_VanD; cd01196 869306001342 Int/Topo IB signature motif; other site 869306001344 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 869306001345 HsdM N-terminal domain; Region: HsdM_N; pfam12161 869306001346 Methyltransferase domain; Region: Methyltransf_26; pfam13659 869306001347 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 869306001348 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 869306001349 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 869306001350 ATP binding site [chemical binding]; other site 869306001351 putative Mg++ binding site [ion binding]; other site 869306001352 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 869306001353 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 869306001354 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 869306001355 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 869306001356 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 869306001357 dimer interface [polypeptide binding]; other site 869306001358 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 869306001359 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 869306001360 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 869306001361 nucleotide binding site [chemical binding]; other site 869306001362 NEF interaction site [polypeptide binding]; other site 869306001363 SBD interface [polypeptide binding]; other site 869306001364 chaperone protein DnaJ; Provisional; Region: PRK14276 869306001365 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 869306001366 HSP70 interaction site [polypeptide binding]; other site 869306001367 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 869306001368 substrate binding site [polypeptide binding]; other site 869306001369 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 869306001370 Zn binding sites [ion binding]; other site 869306001371 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 869306001372 substrate binding site [polypeptide binding]; other site 869306001373 dimer interface [polypeptide binding]; other site 869306001374 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 869306001375 HIT family signature motif; other site 869306001376 catalytic residue [active] 869306001377 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 869306001378 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869306001379 Walker A/P-loop; other site 869306001380 ATP binding site [chemical binding]; other site 869306001381 Q-loop/lid; other site 869306001382 ABC transporter signature motif; other site 869306001383 Walker B; other site 869306001384 D-loop; other site 869306001385 H-loop/switch region; other site 869306001386 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 869306001387 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 869306001388 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869306001389 LytTr DNA-binding domain; Region: LytTR; pfam04397 869306001390 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869306001391 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 869306001392 active site 869306001393 phosphorylation site [posttranslational modification] 869306001394 intermolecular recognition site; other site 869306001395 dimerization interface [polypeptide binding]; other site 869306001396 LytTr DNA-binding domain; Region: LytTR; pfam04397 869306001397 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869306001398 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 869306001399 ATP binding site [chemical binding]; other site 869306001400 Mg2+ binding site [ion binding]; other site 869306001401 G-X-G motif; other site 869306001402 COMC family; Region: ComC; pfam03047 869306001403 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869306001404 HlyD family secretion protein; Region: HlyD_3; pfam13437 869306001406 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 869306001407 putative active site [active] 869306001409 CAAX protease self-immunity; Region: Abi; pfam02517 869306001410 CAAX protease self-immunity; Region: Abi; pfam02517 869306001411 Phosphotransferase enzyme family; Region: APH; pfam01636 869306001412 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 869306001413 substrate binding site [chemical binding]; other site 869306001414 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 869306001415 S-adenosylmethionine binding site [chemical binding]; other site 869306001416 ribosome maturation protein RimP; Reviewed; Region: PRK00092 869306001417 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 869306001418 putative oligomer interface [polypeptide binding]; other site 869306001419 putative RNA binding site [nucleotide binding]; other site 869306001420 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 869306001421 NusA N-terminal domain; Region: NusA_N; pfam08529 869306001422 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 869306001423 RNA binding site [nucleotide binding]; other site 869306001424 homodimer interface [polypeptide binding]; other site 869306001425 NusA-like KH domain; Region: KH_5; pfam13184 869306001426 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 869306001427 G-X-X-G motif; other site 869306001428 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 869306001429 putative RNA binding cleft [nucleotide binding]; other site 869306001430 hypothetical protein; Provisional; Region: PRK07283 869306001431 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 869306001432 translation initiation factor IF-2; Region: IF-2; TIGR00487 869306001433 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 869306001434 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 869306001435 G1 box; other site 869306001436 putative GEF interaction site [polypeptide binding]; other site 869306001437 GTP/Mg2+ binding site [chemical binding]; other site 869306001438 Switch I region; other site 869306001439 G2 box; other site 869306001440 G3 box; other site 869306001441 Switch II region; other site 869306001442 G4 box; other site 869306001443 G5 box; other site 869306001444 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 869306001445 Translation-initiation factor 2; Region: IF-2; pfam11987 869306001446 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 869306001447 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 869306001448 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 869306001449 Uncharacterized conserved protein [Function unknown]; Region: COG2461 869306001450 Family of unknown function (DUF438); Region: DUF438; pfam04282 869306001451 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 869306001452 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 869306001453 putative active site [active] 869306001454 heme pocket [chemical binding]; other site 869306001455 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 869306001456 hypothetical protein; Provisional; Region: PRK07758 869306001457 Flavin Reductases; Region: FlaRed; cl00801 869306001458 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869306001459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306001460 Coenzyme A binding pocket [chemical binding]; other site 869306001461 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 869306001462 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869306001463 active site 869306001464 HIGH motif; other site 869306001465 nucleotide binding site [chemical binding]; other site 869306001466 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 869306001467 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 869306001468 active site 869306001469 KMSKS motif; other site 869306001470 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 869306001471 tRNA binding surface [nucleotide binding]; other site 869306001472 anticodon binding site; other site 869306001473 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 869306001474 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 869306001475 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 869306001476 Fic/DOC family; Region: Fic; pfam02661 869306001479 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 869306001480 putative active site [active] 869306001481 catalytic site [active] 869306001482 transcriptional antiterminator BglG; Provisional; Region: PRK09772 869306001483 CAT RNA binding domain; Region: CAT_RBD; smart01061 869306001484 PRD domain; Region: PRD; pfam00874 869306001485 PRD domain; Region: PRD; pfam00874 869306001486 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 869306001487 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 869306001488 active site turn [active] 869306001489 phosphorylation site [posttranslational modification] 869306001490 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869306001491 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 869306001492 HPr interaction site; other site 869306001493 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869306001494 active site 869306001495 phosphorylation site [posttranslational modification] 869306001496 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869306001497 beta-galactosidase; Region: BGL; TIGR03356 869306001498 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 869306001499 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 869306001500 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 869306001501 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 869306001502 dimer interface [polypeptide binding]; other site 869306001503 motif 1; other site 869306001504 active site 869306001505 motif 2; other site 869306001506 motif 3; other site 869306001507 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869306001508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306001509 Coenzyme A binding pocket [chemical binding]; other site 869306001510 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 869306001511 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 869306001512 putative tRNA-binding site [nucleotide binding]; other site 869306001513 B3/4 domain; Region: B3_4; pfam03483 869306001514 tRNA synthetase B5 domain; Region: B5; smart00874 869306001515 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 869306001516 dimer interface [polypeptide binding]; other site 869306001517 motif 1; other site 869306001518 motif 3; other site 869306001519 motif 2; other site 869306001520 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 869306001521 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 869306001522 putative catalytic site [active] 869306001523 putative metal binding site [ion binding]; other site 869306001524 putative phosphate binding site [ion binding]; other site 869306001526 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 869306001527 non-specific DNA binding site [nucleotide binding]; other site 869306001528 salt bridge; other site 869306001529 sequence-specific DNA binding site [nucleotide binding]; other site 869306001530 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 869306001531 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 869306001532 THF binding site; other site 869306001533 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 869306001534 substrate binding site [chemical binding]; other site 869306001535 THF binding site; other site 869306001536 zinc-binding site [ion binding]; other site 869306001537 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 869306001538 FAD binding site [chemical binding]; other site 869306001539 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 869306001540 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 869306001541 RNase E interface [polypeptide binding]; other site 869306001542 trimer interface [polypeptide binding]; other site 869306001543 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 869306001544 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 869306001545 RNase E interface [polypeptide binding]; other site 869306001546 trimer interface [polypeptide binding]; other site 869306001547 active site 869306001548 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 869306001549 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 869306001550 RNA binding site [nucleotide binding]; other site 869306001551 domain interface; other site 869306001552 serine O-acetyltransferase; Region: cysE; TIGR01172 869306001553 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 869306001554 trimer interface [polypeptide binding]; other site 869306001555 active site 869306001556 substrate binding site [chemical binding]; other site 869306001557 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306001558 Coenzyme A binding pocket [chemical binding]; other site 869306001559 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306001560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306001561 Coenzyme A binding pocket [chemical binding]; other site 869306001562 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 869306001563 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 869306001564 active site 869306001565 HIGH motif; other site 869306001566 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 869306001567 KMSKS motif; other site 869306001568 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 869306001569 tRNA binding surface [nucleotide binding]; other site 869306001570 anticodon binding site; other site 869306001571 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 869306001572 active site 869306001573 metal binding site [ion binding]; metal-binding site 869306001574 dimerization interface [polypeptide binding]; other site 869306001575 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 869306001576 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 869306001577 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 869306001579 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 869306001580 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869306001581 FtsX-like permease family; Region: FtsX; pfam02687 869306001582 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306001583 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869306001584 Walker A/P-loop; other site 869306001585 ATP binding site [chemical binding]; other site 869306001586 Q-loop/lid; other site 869306001587 ABC transporter signature motif; other site 869306001588 Walker B; other site 869306001589 D-loop; other site 869306001590 H-loop/switch region; other site 869306001591 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869306001592 FtsX-like permease family; Region: FtsX; pfam02687 869306001593 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306001594 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 869306001595 active site 869306001596 phosphorylation site [posttranslational modification] 869306001597 intermolecular recognition site; other site 869306001598 dimerization interface [polypeptide binding]; other site 869306001599 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 869306001600 DNA binding site [nucleotide binding] 869306001601 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869306001602 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 869306001603 dimerization interface [polypeptide binding]; other site 869306001604 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 869306001605 dimer interface [polypeptide binding]; other site 869306001606 phosphorylation site [posttranslational modification] 869306001607 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 869306001608 ATP binding site [chemical binding]; other site 869306001609 Mg2+ binding site [ion binding]; other site 869306001610 G-X-G motif; other site 869306001611 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 869306001612 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 869306001613 intersubunit interface [polypeptide binding]; other site 869306001614 active site 869306001615 zinc binding site [ion binding]; other site 869306001616 Na+ binding site [ion binding]; other site 869306001618 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 869306001619 dimer interface [polypeptide binding]; other site 869306001620 conserved gate region; other site 869306001621 putative PBP binding loops; other site 869306001622 ABC-ATPase subunit interface; other site 869306001623 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 869306001624 dimer interface [polypeptide binding]; other site 869306001625 conserved gate region; other site 869306001626 putative PBP binding loops; other site 869306001627 ABC-ATPase subunit interface; other site 869306001628 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 869306001629 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306001630 substrate binding pocket [chemical binding]; other site 869306001631 membrane-bound complex binding site; other site 869306001632 hinge residues; other site 869306001633 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869306001634 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869306001635 Walker A/P-loop; other site 869306001636 ATP binding site [chemical binding]; other site 869306001637 Q-loop/lid; other site 869306001638 ABC transporter signature motif; other site 869306001639 Walker B; other site 869306001640 D-loop; other site 869306001641 H-loop/switch region; other site 869306001642 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 869306001643 DHH family; Region: DHH; pfam01368 869306001644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 869306001645 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 869306001646 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869306001647 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 869306001648 Predicted esterase [General function prediction only]; Region: COG0627 869306001649 S-formylglutathione hydrolase; Region: PLN02442 869306001650 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 869306001651 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 869306001652 FemAB family; Region: FemAB; pfam02388 869306001653 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 869306001654 active site 869306001655 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 869306001656 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 869306001657 GIY-YIG motif/motif A; other site 869306001658 active site 869306001659 catalytic site [active] 869306001660 putative DNA binding site [nucleotide binding]; other site 869306001661 metal binding site [ion binding]; metal-binding site 869306001662 UvrB/uvrC motif; Region: UVR; pfam02151 869306001663 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 869306001664 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 869306001665 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 869306001666 active site 869306001667 metal binding site [ion binding]; metal-binding site 869306001668 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306001669 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 869306001670 substrate binding pocket [chemical binding]; other site 869306001671 membrane-bound complex binding site; other site 869306001672 hinge residues; other site 869306001673 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 869306001674 dimer interface [polypeptide binding]; other site 869306001675 FMN binding site [chemical binding]; other site 869306001676 dipeptidase PepV; Reviewed; Region: PRK07318 869306001677 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 869306001678 active site 869306001679 metal binding site [ion binding]; metal-binding site 869306001680 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 869306001681 putative uracil binding site [chemical binding]; other site 869306001682 putative active site [active] 869306001683 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 869306001685 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 869306001686 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 869306001687 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 869306001688 putative oligomer interface [polypeptide binding]; other site 869306001689 putative active site [active] 869306001690 metal binding site [ion binding]; metal-binding site 869306001692 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 869306001693 DDE superfamily endonuclease; Region: DDE_4; cl17710 869306001695 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 869306001696 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 869306001697 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 869306001698 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 869306001699 23S rRNA interface [nucleotide binding]; other site 869306001700 L7/L12 interface [polypeptide binding]; other site 869306001701 putative thiostrepton binding site; other site 869306001702 L25 interface [polypeptide binding]; other site 869306001703 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 869306001704 mRNA/rRNA interface [nucleotide binding]; other site 869306001706 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 869306001707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306001708 Walker A/P-loop; other site 869306001709 ATP binding site [chemical binding]; other site 869306001710 Q-loop/lid; other site 869306001711 ABC transporter signature motif; other site 869306001712 Walker B; other site 869306001713 D-loop; other site 869306001714 H-loop/switch region; other site 869306001715 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869306001716 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869306001717 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 869306001718 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869306001719 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 869306001720 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 869306001721 putative active site [active] 869306001722 catalytic triad [active] 869306001723 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 869306001724 PA/protease or protease-like domain interface [polypeptide binding]; other site 869306001725 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 869306001726 catalytic residues [active] 869306001727 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 869306001728 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 869306001729 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 869306001730 active site 869306001731 phosphorylation site [posttranslational modification] 869306001732 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 869306001733 active site 869306001734 P-loop; other site 869306001735 phosphorylation site [posttranslational modification] 869306001736 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 869306001737 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 869306001738 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 869306001739 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 869306001740 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 869306001741 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 869306001742 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 869306001743 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869306001744 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869306001745 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869306001746 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869306001747 G5 domain; Region: G5; pfam07501 869306001748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 869306001749 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 869306001750 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 869306001751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 869306001752 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 869306001753 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 869306001754 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 869306001755 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 869306001756 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 869306001757 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 869306001758 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 869306001759 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 869306001760 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 869306001761 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 869306001762 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869306001763 catalytic residues [active] 869306001764 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 869306001765 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 869306001766 SelR domain; Region: SelR; pfam01641 869306001767 Response regulator receiver domain; Region: Response_reg; pfam00072 869306001768 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 869306001769 active site 869306001770 phosphorylation site [posttranslational modification] 869306001771 intermolecular recognition site; other site 869306001772 dimerization interface [polypeptide binding]; other site 869306001773 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869306001774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869306001775 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869306001776 Cache domain; Region: Cache_1; pfam02743 869306001777 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 869306001778 dimerization interface [polypeptide binding]; other site 869306001779 Histidine kinase; Region: His_kinase; pfam06580 869306001780 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 869306001781 ATP binding site [chemical binding]; other site 869306001782 Mg2+ binding site [ion binding]; other site 869306001783 G-X-G motif; other site 869306001784 hypothetical protein; Provisional; Region: PRK13690 869306001785 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 869306001786 MARCKS family; Region: MARCKS; pfam02063 869306001787 G5 domain; Region: G5; pfam07501 869306001788 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 869306001789 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 869306001790 aminodeoxychorismate synthase; Provisional; Region: PRK07508 869306001791 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 869306001792 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 869306001793 substrate-cofactor binding pocket; other site 869306001794 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 869306001795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306001796 catalytic residue [active] 869306001797 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 869306001798 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306001799 Excalibur calcium-binding domain; Region: Excalibur; smart00894 869306001800 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 869306001801 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869306001802 nucleotide binding site [chemical binding]; other site 869306001803 thymidylate synthase; Reviewed; Region: thyA; PRK01827 869306001804 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 869306001805 dimerization interface [polypeptide binding]; other site 869306001806 active site 869306001807 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 869306001808 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 869306001809 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 869306001810 GTPases [General function prediction only]; Region: HflX; COG2262 869306001811 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 869306001812 HflX GTPase family; Region: HflX; cd01878 869306001813 G1 box; other site 869306001814 GTP/Mg2+ binding site [chemical binding]; other site 869306001815 Switch I region; other site 869306001816 G2 box; other site 869306001817 G3 box; other site 869306001818 Switch II region; other site 869306001819 G4 box; other site 869306001820 G5 box; other site 869306001821 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 869306001822 ribonuclease Z; Region: RNase_Z; TIGR02651 869306001823 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 869306001824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869306001825 NAD(P) binding site [chemical binding]; other site 869306001826 active site 869306001827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 869306001828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 869306001829 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 869306001830 dimerization interface [polypeptide binding]; other site 869306001831 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 869306001832 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 869306001833 active site residue [active] 869306001834 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869306001835 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 869306001836 RNA binding surface [nucleotide binding]; other site 869306001837 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 869306001838 active site 869306001839 uracil binding [chemical binding]; other site 869306001840 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 869306001841 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 869306001842 G1 box; other site 869306001843 putative GEF interaction site [polypeptide binding]; other site 869306001844 GTP/Mg2+ binding site [chemical binding]; other site 869306001845 Switch I region; other site 869306001846 G2 box; other site 869306001847 G3 box; other site 869306001848 Switch II region; other site 869306001849 G4 box; other site 869306001850 G5 box; other site 869306001851 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 869306001852 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 869306001853 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 869306001854 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 869306001855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869306001856 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869306001857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306001858 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869306001859 Walker A/P-loop; other site 869306001860 ATP binding site [chemical binding]; other site 869306001861 Q-loop/lid; other site 869306001862 ABC transporter signature motif; other site 869306001863 Walker B; other site 869306001864 D-loop; other site 869306001865 H-loop/switch region; other site 869306001866 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 869306001867 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 869306001868 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869306001869 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869306001870 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 869306001871 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 869306001872 homodimer interface [polypeptide binding]; other site 869306001873 active site 869306001874 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 869306001875 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 869306001876 Cell division protein FtsQ; Region: FtsQ; pfam03799 869306001877 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 869306001878 active site 869306001879 dimer interface [polypeptide binding]; other site 869306001880 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306001881 active site 869306001882 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306001883 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306001884 Walker A/P-loop; other site 869306001885 ATP binding site [chemical binding]; other site 869306001886 Q-loop/lid; other site 869306001887 ABC transporter signature motif; other site 869306001888 Walker B; other site 869306001889 D-loop; other site 869306001890 H-loop/switch region; other site 869306001891 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 869306001892 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 869306001893 substrate binding pocket [chemical binding]; other site 869306001894 membrane-bound complex binding site; other site 869306001895 hinge residues; other site 869306001897 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 869306001898 dimer interface [polypeptide binding]; other site 869306001899 conserved gate region; other site 869306001900 putative PBP binding loops; other site 869306001901 ABC-ATPase subunit interface; other site 869306001902 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 869306001903 dimer interface [polypeptide binding]; other site 869306001904 conserved gate region; other site 869306001905 putative PBP binding loops; other site 869306001906 ABC-ATPase subunit interface; other site 869306001907 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 869306001908 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 869306001909 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 869306001910 dimer interface [polypeptide binding]; other site 869306001911 putative anticodon binding site; other site 869306001912 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 869306001913 motif 1; other site 869306001914 active site 869306001915 motif 2; other site 869306001916 motif 3; other site 869306001917 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 869306001918 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 869306001919 teramer interface [polypeptide binding]; other site 869306001920 active site 869306001921 FMN binding site [chemical binding]; other site 869306001922 catalytic residues [active] 869306001923 Putative transcription activator [Transcription]; Region: TenA; COG0819 869306001924 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 869306001925 substrate binding site [chemical binding]; other site 869306001926 multimerization interface [polypeptide binding]; other site 869306001927 ATP binding site [chemical binding]; other site 869306001928 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 869306001929 thiamine phosphate binding site [chemical binding]; other site 869306001930 active site 869306001931 pyrophosphate binding site [ion binding]; other site 869306001932 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 869306001933 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869306001934 Walker A/P-loop; other site 869306001935 ATP binding site [chemical binding]; other site 869306001936 ABC transporter; Region: ABC_tran; pfam00005 869306001937 Q-loop/lid; other site 869306001938 ABC transporter signature motif; other site 869306001939 Walker B; other site 869306001940 D-loop; other site 869306001941 H-loop/switch region; other site 869306001942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306001943 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 869306001944 Walker A/P-loop; other site 869306001945 ATP binding site [chemical binding]; other site 869306001946 Q-loop/lid; other site 869306001947 ABC transporter signature motif; other site 869306001948 Walker B; other site 869306001949 D-loop; other site 869306001950 H-loop/switch region; other site 869306001951 Putative transcription activator [Transcription]; Region: TenA; COG0819 869306001952 Predicted membrane protein [Function unknown]; Region: COG4732 869306001953 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 869306001954 substrate binding site [chemical binding]; other site 869306001955 multimerization interface [polypeptide binding]; other site 869306001956 ATP binding site [chemical binding]; other site 869306001957 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 869306001958 thiamine phosphate binding site [chemical binding]; other site 869306001959 active site 869306001960 pyrophosphate binding site [ion binding]; other site 869306001961 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 869306001962 dimer interface [polypeptide binding]; other site 869306001963 substrate binding site [chemical binding]; other site 869306001964 ATP binding site [chemical binding]; other site 869306001965 Predicted transcriptional regulator [Transcription]; Region: COG3682 869306001966 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 869306001967 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 869306001968 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 869306001969 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 869306001970 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 869306001971 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869306001972 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869306001973 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 869306001974 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 869306001975 PYR/PP interface [polypeptide binding]; other site 869306001976 dimer interface [polypeptide binding]; other site 869306001977 tetramer interface [polypeptide binding]; other site 869306001978 TPP binding site [chemical binding]; other site 869306001979 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 869306001980 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 869306001981 TPP-binding site [chemical binding]; other site 869306001982 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869306001983 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 869306001984 active site 869306001987 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 869306001988 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 869306001989 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 869306001991 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 869306001992 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 869306001993 dimer interface [polypeptide binding]; other site 869306001994 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 869306001995 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 869306001996 putative active site [active] 869306001997 nucleotide binding site [chemical binding]; other site 869306001998 nudix motif; other site 869306001999 putative metal binding site [ion binding]; other site 869306002000 HI0933-like protein; Region: HI0933_like; pfam03486 869306002001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 869306002002 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869306002003 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869306002004 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869306002005 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 869306002006 catalytic motif [active] 869306002007 Zn binding site [ion binding]; other site 869306002008 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306002009 active site 869306002010 Clp protease; Region: CLP_protease; pfam00574 869306002011 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 869306002012 oligomer interface [polypeptide binding]; other site 869306002013 active site residues [active] 869306002014 hypothetical protein; Provisional; Region: PRK02302 869306002015 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 869306002016 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 869306002017 putative ligand binding site [chemical binding]; other site 869306002018 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869306002019 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 869306002020 TM-ABC transporter signature motif; other site 869306002021 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 869306002022 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 869306002023 TM-ABC transporter signature motif; other site 869306002024 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 869306002025 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 869306002026 Walker A/P-loop; other site 869306002027 ATP binding site [chemical binding]; other site 869306002028 Q-loop/lid; other site 869306002029 ABC transporter signature motif; other site 869306002030 Walker B; other site 869306002031 D-loop; other site 869306002032 H-loop/switch region; other site 869306002033 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 869306002034 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 869306002035 Walker A/P-loop; other site 869306002036 ATP binding site [chemical binding]; other site 869306002037 Q-loop/lid; other site 869306002038 ABC transporter signature motif; other site 869306002039 Walker B; other site 869306002040 D-loop; other site 869306002041 H-loop/switch region; other site 869306002042 FOG: CBS domain [General function prediction only]; Region: COG0517 869306002043 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 869306002044 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 869306002045 peptide chain release factor 2; Validated; Region: prfB; PRK00578 869306002046 PCRF domain; Region: PCRF; pfam03462 869306002047 RF-1 domain; Region: RF-1; pfam00472 869306002048 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 869306002049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306002050 Walker A/P-loop; other site 869306002051 ATP binding site [chemical binding]; other site 869306002052 Q-loop/lid; other site 869306002053 ABC transporter signature motif; other site 869306002054 Walker B; other site 869306002055 D-loop; other site 869306002056 H-loop/switch region; other site 869306002057 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 869306002058 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 869306002059 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869306002060 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 869306002061 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 869306002062 active site turn [active] 869306002063 phosphorylation site [posttranslational modification] 869306002064 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 869306002065 HPr interaction site; other site 869306002066 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869306002067 active site 869306002068 phosphorylation site [posttranslational modification] 869306002069 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 869306002070 putative catalytic site [active] 869306002071 putative metal binding site [ion binding]; other site 869306002072 putative phosphate binding site [ion binding]; other site 869306002073 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 869306002074 DEAD-like helicases superfamily; Region: DEXDc; smart00487 869306002075 ATP binding site [chemical binding]; other site 869306002076 Mg++ binding site [ion binding]; other site 869306002077 motif III; other site 869306002078 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 869306002079 nucleotide binding region [chemical binding]; other site 869306002080 ATP-binding site [chemical binding]; other site 869306002081 S-adenosylmethionine synthetase; Validated; Region: PRK05250 869306002082 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 869306002083 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 869306002084 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 869306002085 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 869306002086 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 869306002087 active site 869306002088 FMN binding site [chemical binding]; other site 869306002089 substrate binding site [chemical binding]; other site 869306002090 catalytic residues [active] 869306002091 homodimer interface [polypeptide binding]; other site 869306002092 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 869306002093 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 869306002094 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 869306002095 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 869306002096 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 869306002097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 869306002098 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 869306002099 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 869306002100 FeS/SAM binding site; other site 869306002101 VanZ like family; Region: VanZ; pfam04892 869306002102 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869306002103 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306002104 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306002105 ABC transporter; Region: ABC_tran_2; pfam12848 869306002106 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306002107 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 869306002108 active site 869306002109 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 869306002110 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 869306002111 KH domain; Region: KH_4; pfam13083 869306002112 G-X-X-G motif; other site 869306002113 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 869306002114 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 869306002115 RimM N-terminal domain; Region: RimM; pfam01782 869306002116 PRC-barrel domain; Region: PRC; pfam05239 869306002117 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 869306002118 ATP cone domain; Region: ATP-cone; pfam03477 869306002119 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 869306002120 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 869306002121 glutathione reductase; Validated; Region: PRK06116 869306002122 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869306002123 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869306002124 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869306002125 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 869306002126 HlyD family secretion protein; Region: HlyD_3; pfam13437 869306002127 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306002128 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869306002129 Walker A/P-loop; other site 869306002130 ATP binding site [chemical binding]; other site 869306002131 Q-loop/lid; other site 869306002132 ABC transporter signature motif; other site 869306002133 Walker B; other site 869306002134 D-loop; other site 869306002135 H-loop/switch region; other site 869306002136 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 869306002137 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869306002138 FtsX-like permease family; Region: FtsX; pfam02687 869306002139 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 869306002140 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 869306002141 active site 869306002142 HIGH motif; other site 869306002143 KMSKS motif; other site 869306002144 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 869306002145 tRNA binding surface [nucleotide binding]; other site 869306002146 anticodon binding site; other site 869306002147 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 869306002148 dimer interface [polypeptide binding]; other site 869306002149 putative tRNA-binding site [nucleotide binding]; other site 869306002150 Predicted transcriptional regulators [Transcription]; Region: COG1695 869306002151 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 869306002152 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 869306002153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 869306002154 active site 869306002155 catalytic tetrad [active] 869306002156 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 869306002157 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 869306002158 classical (c) SDRs; Region: SDR_c; cd05233 869306002159 NAD(P) binding site [chemical binding]; other site 869306002160 active site 869306002161 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 869306002162 nudix motif; other site 869306002163 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 869306002164 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 869306002165 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 869306002166 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 869306002167 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 869306002168 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 869306002169 Zn binding site [ion binding]; other site 869306002170 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306002171 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 869306002172 active site 869306002173 phosphorylation site [posttranslational modification] 869306002174 intermolecular recognition site; other site 869306002175 dimerization interface [polypeptide binding]; other site 869306002176 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 869306002177 DNA binding site [nucleotide binding] 869306002178 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869306002179 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 869306002180 dimer interface [polypeptide binding]; other site 869306002181 phosphorylation site [posttranslational modification] 869306002182 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 869306002183 ATP binding site [chemical binding]; other site 869306002184 Mg2+ binding site [ion binding]; other site 869306002185 G-X-G motif; other site 869306002186 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 869306002187 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 869306002188 Peptidase family U32; Region: Peptidase_U32; pfam01136 869306002189 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 869306002190 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869306002191 active site 869306002192 catalytic site [active] 869306002193 substrate binding site [chemical binding]; other site 869306002194 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 869306002195 ATP binding site [chemical binding]; other site 869306002196 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 869306002197 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 869306002198 DJ-1 family protein; Region: not_thiJ; TIGR01383 869306002199 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 869306002200 conserved cys residue [active] 869306002201 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 869306002202 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 869306002203 motif II; other site 869306002204 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 869306002205 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 869306002206 Mg2+ binding site [ion binding]; other site 869306002207 G-X-G motif; other site 869306002208 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 869306002209 anchoring element; other site 869306002210 dimer interface [polypeptide binding]; other site 869306002211 ATP binding site [chemical binding]; other site 869306002212 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 869306002213 active site 869306002214 putative metal-binding site [ion binding]; other site 869306002215 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 869306002216 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 869306002218 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 869306002219 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 869306002220 nudix motif; other site 869306002222 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 869306002223 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 869306002224 Walker A motif; other site 869306002225 ATP binding site [chemical binding]; other site 869306002226 Walker B motif; other site 869306002227 arginine finger; other site 869306002228 UvrB/uvrC motif; Region: UVR; pfam02151 869306002229 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 869306002230 Walker A motif; other site 869306002231 ATP binding site [chemical binding]; other site 869306002232 Walker B motif; other site 869306002233 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869306002234 This gene appears to have been derived through a fusion of permease and ATP-binding subunits of a glutamine-transporting ABC transporter 869306002235 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 869306002236 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 869306002237 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 869306002238 homodimer interface [polypeptide binding]; other site 869306002239 NADP binding site [chemical binding]; other site 869306002240 substrate binding site [chemical binding]; other site 869306002241 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 869306002242 putative substrate binding site [chemical binding]; other site 869306002243 putative ATP binding site [chemical binding]; other site 869306002244 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 869306002245 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869306002246 active site 869306002247 dimer interface [polypeptide binding]; other site 869306002248 phosphopentomutase; Provisional; Region: PRK05362 869306002249 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 869306002250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 869306002251 purine nucleoside phosphorylase; Provisional; Region: PRK08202 869306002253 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 869306002254 topology modulation protein; Provisional; Region: PRK07261 869306002255 AAA domain; Region: AAA_17; pfam13207 869306002256 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 869306002257 pantothenate kinase; Provisional; Region: PRK05439 869306002258 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 869306002259 ATP-binding site [chemical binding]; other site 869306002260 CoA-binding site [chemical binding]; other site 869306002261 Mg2+-binding site [ion binding]; other site 869306002262 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869306002263 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 869306002264 S-adenosylmethionine binding site [chemical binding]; other site 869306002265 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 869306002266 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 869306002267 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 869306002268 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 869306002269 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 869306002270 intersubunit interface [polypeptide binding]; other site 869306002271 active site 869306002272 catalytic residue [active] 869306002273 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 869306002274 active site 869306002275 catalytic motif [active] 869306002276 Zn binding site [ion binding]; other site 869306002277 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 869306002278 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 869306002279 ligand binding site [chemical binding]; other site 869306002280 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 869306002281 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 869306002282 Walker A/P-loop; other site 869306002283 ATP binding site [chemical binding]; other site 869306002284 Q-loop/lid; other site 869306002285 ABC transporter signature motif; other site 869306002286 Walker B; other site 869306002287 D-loop; other site 869306002288 H-loop/switch region; other site 869306002289 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 869306002290 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869306002291 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 869306002292 TM-ABC transporter signature motif; other site 869306002293 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869306002294 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 869306002295 TM-ABC transporter signature motif; other site 869306002298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 869306002299 Transposase; Region: DDE_Tnp_ISL3; pfam01610 869306002300 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 869306002301 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 869306002302 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 869306002303 Mg2+ binding site [ion binding]; other site 869306002304 G-X-G motif; other site 869306002305 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 869306002306 anchoring element; other site 869306002307 dimer interface [polypeptide binding]; other site 869306002308 ATP binding site [chemical binding]; other site 869306002309 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 869306002310 active site 869306002311 putative metal-binding site [ion binding]; other site 869306002312 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 869306002313 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 869306002314 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 869306002315 CAP-like domain; other site 869306002316 active site 869306002317 primary dimer interface [polypeptide binding]; other site 869306002318 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869306002319 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 869306002320 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 869306002321 homodimer interface [polypeptide binding]; other site 869306002322 substrate-cofactor binding pocket; other site 869306002323 catalytic residue [active] 869306002324 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 869306002325 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 869306002326 Predicted membrane protein [Function unknown]; Region: COG3819 869306002327 Predicted membrane protein [Function unknown]; Region: COG3817 869306002328 Protein of unknown function (DUF979); Region: DUF979; pfam06166 869306002329 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 869306002330 putative substrate binding pocket [chemical binding]; other site 869306002331 AC domain interface; other site 869306002332 catalytic triad [active] 869306002333 AB domain interface; other site 869306002334 interchain disulfide; other site 869306002335 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 869306002336 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 869306002337 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 869306002338 RNA binding site [nucleotide binding]; other site 869306002339 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 869306002340 RNA binding site [nucleotide binding]; other site 869306002341 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 869306002342 RNA binding site [nucleotide binding]; other site 869306002343 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 869306002344 RNA binding site [nucleotide binding]; other site 869306002346 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 869306002347 GAF domain; Region: GAF_2; pfam13185 869306002348 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 869306002349 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 869306002350 Walker A motif; other site 869306002351 ATP binding site [chemical binding]; other site 869306002352 Walker B motif; other site 869306002353 arginine finger; other site 869306002354 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 869306002355 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 869306002356 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 869306002357 Walker A/P-loop; other site 869306002358 ATP binding site [chemical binding]; other site 869306002359 Q-loop/lid; other site 869306002360 ABC transporter signature motif; other site 869306002361 Walker B; other site 869306002362 D-loop; other site 869306002363 H-loop/switch region; other site 869306002364 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 869306002365 FeS assembly protein SufD; Region: sufD; TIGR01981 869306002366 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 869306002367 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 869306002368 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869306002369 catalytic residue [active] 869306002370 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 869306002371 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 869306002372 trimerization site [polypeptide binding]; other site 869306002373 active site 869306002374 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 869306002375 FeS assembly protein SufB; Region: sufB; TIGR01980 869306002376 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 869306002377 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 869306002378 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 869306002379 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 869306002380 Domain of unknown function DUF20; Region: UPF0118; pfam01594 869306002381 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869306002382 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 869306002383 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869306002384 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 869306002385 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 869306002386 putative substrate binding site [chemical binding]; other site 869306002387 putative ATP binding site [chemical binding]; other site 869306002388 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 869306002389 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 869306002390 active site 869306002391 phosphorylation site [posttranslational modification] 869306002392 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 869306002393 active site 869306002394 P-loop; other site 869306002395 phosphorylation site [posttranslational modification] 869306002396 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 869306002397 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 869306002398 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 869306002399 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 869306002400 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 869306002401 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 869306002402 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 869306002403 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869306002404 catalytic residue [active] 869306002405 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 869306002406 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 869306002407 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 869306002408 Ligand Binding Site [chemical binding]; other site 869306002409 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 869306002410 Putative esterase; Region: Esterase; pfam00756 869306002411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 869306002412 Putative esterase; Region: Esterase; pfam00756 869306002414 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 869306002415 HsdM N-terminal domain; Region: HsdM_N; pfam12161 869306002416 Methyltransferase domain; Region: Methyltransf_26; pfam13659 869306002417 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 869306002418 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 869306002419 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 869306002420 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 869306002421 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 869306002422 active site 869306002423 catalytic residues [active] 869306002424 DNA binding site [nucleotide binding] 869306002425 Int/Topo IB signature motif; other site 869306002426 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 869306002427 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869306002429 Arginine repressor [Transcription]; Region: ArgR; COG1438 869306002430 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869306002431 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869306002432 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 869306002433 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 869306002434 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 869306002435 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 869306002436 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 869306002437 active site 869306002438 PHP Thumb interface [polypeptide binding]; other site 869306002439 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 869306002440 generic binding surface II; other site 869306002441 generic binding surface I; other site 869306002442 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 869306002443 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 869306002444 active site 869306002445 ADP/pyrophosphate binding site [chemical binding]; other site 869306002446 dimerization interface [polypeptide binding]; other site 869306002447 allosteric effector site; other site 869306002448 fructose-1,6-bisphosphate binding site; other site 869306002449 pyruvate kinase; Provisional; Region: PRK05826 869306002450 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 869306002451 domain interfaces; other site 869306002452 active site 869306002454 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 869306002455 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 869306002456 Predicted membrane protein [Function unknown]; Region: COG3689 869306002457 Predicted permeases [General function prediction only]; Region: COG0701 869306002458 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 869306002459 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 869306002460 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 869306002461 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 869306002462 RNA binding site [nucleotide binding]; other site 869306002463 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 869306002464 hypothetical protein; Provisional; Region: PRK04351 869306002465 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 869306002466 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306002467 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869306002468 Walker A/P-loop; other site 869306002469 ATP binding site [chemical binding]; other site 869306002470 Q-loop/lid; other site 869306002471 ABC transporter signature motif; other site 869306002472 Walker B; other site 869306002473 D-loop; other site 869306002474 H-loop/switch region; other site 869306002475 FtsX-like permease family; Region: FtsX; pfam02687 869306002476 disrupted by IS insertion 869306002477 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 869306002478 Helix-turn-helix domain; Region: HTH_38; pfam13936 869306002479 Integrase core domain; Region: rve; pfam00665 869306002480 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 869306002481 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 869306002482 homodimer interface [polypeptide binding]; other site 869306002483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306002484 catalytic residue [active] 869306002485 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 869306002486 Transposase; Region: DEDD_Tnp_IS110; pfam01548 869306002487 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 869306002488 spermidine synthase; Provisional; Region: PRK00811 869306002489 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 869306002490 S-adenosylmethionine binding site [chemical binding]; other site 869306002491 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 869306002492 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 869306002493 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 869306002494 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 869306002495 dimer interface [polypeptide binding]; other site 869306002496 active site 869306002497 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869306002498 catalytic residues [active] 869306002499 substrate binding site [chemical binding]; other site 869306002500 agmatine deiminase; Provisional; Region: PRK13551 869306002501 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 869306002502 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 869306002503 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 869306002504 putative active site; other site 869306002505 catalytic triad [active] 869306002506 putative dimer interface [polypeptide binding]; other site 869306002507 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 869306002508 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869306002509 active site 869306002510 motif I; other site 869306002511 motif II; other site 869306002512 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 869306002513 CAAX protease self-immunity; Region: Abi; pfam02517 869306002514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 869306002515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 869306002516 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 869306002517 dimerization interface [polypeptide binding]; other site 869306002518 lipoprotein signal peptidase; Provisional; Region: PRK14797 869306002519 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869306002520 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 869306002521 RNA binding surface [nucleotide binding]; other site 869306002522 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869306002523 active site 869306002524 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 869306002525 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869306002526 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306002527 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 869306002528 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 869306002529 nucleotide binding site [chemical binding]; other site 869306002530 homotetrameric interface [polypeptide binding]; other site 869306002531 putative phosphate binding site [ion binding]; other site 869306002532 putative allosteric binding site; other site 869306002533 PUA domain; Region: PUA; pfam01472 869306002534 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 869306002535 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 869306002536 putative catalytic cysteine [active] 869306002537 pyrroline-5-carboxylate reductase; Region: PLN02688 869306002538 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 869306002539 thymidylate kinase; Validated; Region: tmk; PRK00698 869306002540 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 869306002541 TMP-binding site; other site 869306002542 ATP-binding site [chemical binding]; other site 869306002543 DNA polymerase III subunit delta'; Validated; Region: PRK07276 869306002544 DNA polymerase III subunit delta'; Validated; Region: PRK08485 869306002545 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 869306002546 Predicted methyltransferases [General function prediction only]; Region: COG0313 869306002547 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 869306002548 putative SAM binding site [chemical binding]; other site 869306002549 putative homodimer interface [polypeptide binding]; other site 869306002550 Uncharacterized conserved protein [Function unknown]; Region: COG4283 869306002551 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 869306002554 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 869306002555 Glucose inhibited division protein A; Region: GIDA; pfam01134 869306002556 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 869306002557 putative nucleotide binding site [chemical binding]; other site 869306002558 uridine monophosphate binding site [chemical binding]; other site 869306002559 homohexameric interface [polypeptide binding]; other site 869306002560 ribosome recycling factor; Reviewed; Region: frr; PRK00083 869306002561 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 869306002562 hinge region; other site 869306002563 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 869306002564 S1 domain; Region: S1_2; pfam13509 869306002565 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 869306002566 hypothetical protein; Provisional; Region: PRK13672 869306002567 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 869306002568 PhoH-like protein; Region: PhoH; pfam02562 869306002569 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306002570 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306002571 Coenzyme A binding pocket [chemical binding]; other site 869306002574 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306002575 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869306002576 SLBB domain; Region: SLBB; pfam10531 869306002577 comEA protein; Region: comE; TIGR01259 869306002578 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 869306002579 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 869306002580 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 869306002581 Competence protein; Region: Competence; pfam03772 869306002582 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 869306002583 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869306002584 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869306002585 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869306002586 Walker A/P-loop; other site 869306002587 ATP binding site [chemical binding]; other site 869306002588 Q-loop/lid; other site 869306002589 ABC transporter signature motif; other site 869306002590 Walker B; other site 869306002591 D-loop; other site 869306002592 H-loop/switch region; other site 869306002593 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 869306002594 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 869306002595 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 869306002596 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 869306002597 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 869306002598 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 869306002599 23S rRNA binding site [nucleotide binding]; other site 869306002600 L21 binding site [polypeptide binding]; other site 869306002601 L13 binding site [polypeptide binding]; other site 869306002602 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869306002603 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 869306002604 dimer interface [polypeptide binding]; other site 869306002605 active site 869306002606 metal binding site [ion binding]; metal-binding site 869306002607 glutathione binding site [chemical binding]; other site 869306002608 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 869306002609 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 869306002610 FAD binding pocket [chemical binding]; other site 869306002611 FAD binding motif [chemical binding]; other site 869306002612 phosphate binding motif [ion binding]; other site 869306002613 beta-alpha-beta structure motif; other site 869306002614 NAD binding pocket [chemical binding]; other site 869306002615 Iron coordination center [ion binding]; other site 869306002616 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 869306002617 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 869306002618 heterodimer interface [polypeptide binding]; other site 869306002619 active site 869306002620 FMN binding site [chemical binding]; other site 869306002621 homodimer interface [polypeptide binding]; other site 869306002622 substrate binding site [chemical binding]; other site 869306002623 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306002624 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 869306002625 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 869306002626 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 869306002627 Domain of unknown function (DUF814); Region: DUF814; pfam05670 869306002628 metal-binding heat shock protein; Provisional; Region: PRK00016 869306002629 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 869306002630 GTPase Era; Reviewed; Region: era; PRK00089 869306002631 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 869306002632 G1 box; other site 869306002633 GTP/Mg2+ binding site [chemical binding]; other site 869306002634 Switch I region; other site 869306002635 G2 box; other site 869306002636 Switch II region; other site 869306002637 G3 box; other site 869306002638 G4 box; other site 869306002639 G5 box; other site 869306002640 KH domain; Region: KH_2; pfam07650 869306002641 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 869306002642 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 869306002643 DNA binding site [nucleotide binding] 869306002644 catalytic residue [active] 869306002645 H2TH interface [polypeptide binding]; other site 869306002646 putative catalytic residues [active] 869306002647 turnover-facilitating residue; other site 869306002648 intercalation triad [nucleotide binding]; other site 869306002649 8OG recognition residue [nucleotide binding]; other site 869306002650 putative reading head residues; other site 869306002651 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 869306002652 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 869306002653 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 869306002654 dephospho-CoA kinase; Region: TIGR00152 869306002655 CoA-binding site [chemical binding]; other site 869306002656 ATP-binding [chemical binding]; other site 869306002657 drug efflux system protein MdtG; Provisional; Region: PRK09874 869306002658 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 869306002659 putative substrate translocation pore; other site 869306002660 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 869306002661 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 869306002662 ribonuclease R; Region: RNase_R; TIGR02063 869306002663 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 869306002664 RNB domain; Region: RNB; pfam00773 869306002665 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 869306002666 RNA binding site [nucleotide binding]; other site 869306002667 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 869306002668 SmpB-tmRNA interface; other site 869306002669 tellurite resistance protein TehB; Provisional; Region: PRK12335 869306002670 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 869306002671 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 869306002672 S-adenosylmethionine binding site [chemical binding]; other site 869306002673 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 869306002674 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 869306002675 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 869306002676 active site 869306002677 Zn binding site [ion binding]; other site 869306002678 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 869306002679 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 869306002680 S-adenosylmethionine binding site [chemical binding]; other site 869306002681 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 869306002682 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 869306002686 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 869306002687 catalytic core [active] 869306002688 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 869306002689 putative deacylase active site [active] 869306002690 Predicted membrane protein [Function unknown]; Region: COG2035 869306002691 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 869306002692 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 869306002693 active site 869306002694 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 869306002695 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 869306002696 Substrate binding site; other site 869306002697 Mg++ binding site; other site 869306002698 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 869306002699 active site 869306002700 substrate binding site [chemical binding]; other site 869306002701 CoA binding site [chemical binding]; other site 869306002702 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 869306002703 dimer interface [polypeptide binding]; other site 869306002704 ADP-ribose binding site [chemical binding]; other site 869306002705 active site 869306002706 nudix motif; other site 869306002707 metal binding site [ion binding]; metal-binding site 869306002708 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 869306002709 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 869306002710 MarR family; Region: MarR_2; cl17246 869306002711 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 869306002712 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869306002713 active site 869306002714 catalytic site [active] 869306002715 substrate binding site [chemical binding]; other site 869306002716 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 869306002717 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 869306002718 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 869306002719 putative active site [active] 869306002720 catalytic site [active] 869306002721 putative metal binding site [ion binding]; other site 869306002723 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cl17045 869306002724 dimer interface [polypeptide binding]; other site 869306002725 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 869306002726 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 869306002727 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 869306002728 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869306002729 catalytic residues [active] 869306002730 amino acid transporter; Region: 2A0306; TIGR00909 869306002731 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 869306002732 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869306002733 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 869306002734 metal binding site [ion binding]; metal-binding site 869306002735 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869306002736 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306002737 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306002738 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306002739 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869306002740 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306002741 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306002742 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306002743 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306002747 peptidase T; Region: peptidase-T; TIGR01882 869306002748 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 869306002749 metal binding site [ion binding]; metal-binding site 869306002750 dimer interface [polypeptide binding]; other site 869306002751 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 869306002752 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 869306002753 C-terminal domain interface [polypeptide binding]; other site 869306002754 active site 869306002755 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 869306002756 active site 869306002757 N-terminal domain interface [polypeptide binding]; other site 869306002758 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 869306002759 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 869306002760 Predicted membrane protein [Function unknown]; Region: COG2246 869306002761 GtrA-like protein; Region: GtrA; pfam04138 869306002762 Predicted membrane protein [Function unknown]; Region: COG4708 869306002763 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 869306002764 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 869306002765 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 869306002766 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 869306002767 dimer interface [polypeptide binding]; other site 869306002768 active site 869306002769 catalytic residue [active] 869306002770 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 869306002771 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 869306002772 trmE is a tRNA modification GTPase; Region: trmE; cd04164 869306002773 G1 box; other site 869306002774 GTP/Mg2+ binding site [chemical binding]; other site 869306002775 Switch I region; other site 869306002776 G2 box; other site 869306002777 Switch II region; other site 869306002778 G3 box; other site 869306002779 G4 box; other site 869306002780 G5 box; other site 869306002781 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 869306002782 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 869306002783 active site 1 [active] 869306002784 dimer interface [polypeptide binding]; other site 869306002785 hexamer interface [polypeptide binding]; other site 869306002786 active site 2 [active] 869306002787 thymidine kinase; Provisional; Region: PRK04296 869306002788 peptide chain release factor 1; Validated; Region: prfA; PRK00591 869306002789 This domain is found in peptide chain release factors; Region: PCRF; smart00937 869306002790 RF-1 domain; Region: RF-1; pfam00472 869306002791 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 869306002792 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 869306002793 S-adenosylmethionine binding site [chemical binding]; other site 869306002794 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 869306002795 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869306002796 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306002797 Coenzyme A binding pocket [chemical binding]; other site 869306002798 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 869306002799 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 869306002800 dimer interface [polypeptide binding]; other site 869306002801 active site 869306002802 glycine-pyridoxal phosphate binding site [chemical binding]; other site 869306002803 folate binding site [chemical binding]; other site 869306002804 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 869306002805 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 869306002806 Lysozyme-like; Region: Lysozyme_like; pfam13702 869306002807 Predicted secreted protein [Function unknown]; Region: COG4086 869306002808 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 869306002809 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 869306002810 TRAM domain; Region: TRAM; cl01282 869306002811 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 869306002812 S-adenosylmethionine binding site [chemical binding]; other site 869306002813 Predicted transcriptional regulator [Transcription]; Region: COG3655 869306002814 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 869306002815 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 869306002816 siderophore binding site; other site 869306002817 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 869306002818 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 869306002819 ABC-ATPase subunit interface; other site 869306002820 dimer interface [polypeptide binding]; other site 869306002821 putative PBP binding regions; other site 869306002822 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 869306002823 ABC-ATPase subunit interface; other site 869306002824 dimer interface [polypeptide binding]; other site 869306002825 putative PBP binding regions; other site 869306002826 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 869306002827 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 869306002828 Walker A/P-loop; other site 869306002829 ATP binding site [chemical binding]; other site 869306002830 Q-loop/lid; other site 869306002831 ABC transporter signature motif; other site 869306002832 Walker B; other site 869306002833 D-loop; other site 869306002834 H-loop/switch region; other site 869306002836 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 869306002838 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 869306002839 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 869306002840 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 869306002841 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 869306002842 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 869306002843 homodimer interface [polypeptide binding]; other site 869306002844 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 869306002845 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 869306002846 active site 869306002847 homodimer interface [polypeptide binding]; other site 869306002848 catalytic site [active] 869306002849 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306002850 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 869306002851 non-specific DNA binding site [nucleotide binding]; other site 869306002852 salt bridge; other site 869306002853 sequence-specific DNA binding site [nucleotide binding]; other site 869306002854 Zeta toxin; Region: Zeta_toxin; pfam06414 869306002855 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 869306002856 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 869306002857 AAA domain; Region: AAA_21; pfam13304 869306002858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306002859 ABC transporter signature motif; other site 869306002860 Walker B; other site 869306002861 D-loop; other site 869306002862 H-loop/switch region; other site 869306002863 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 869306002865 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 869306002866 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 869306002867 ATP-grasp domain; Region: ATP-grasp_4; cl17255 869306002868 Enolase [Carbohydrate transport and metabolism]; Region: Eno; COG0148 869306002869 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 869306002870 metal binding site [ion binding]; metal-binding site 869306002871 substrate binding pocket [chemical binding]; other site 869306002872 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 869306002873 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; cd00449 869306002874 homodimer interface [polypeptide binding]; other site 869306002875 substrate-cofactor binding pocket; other site 869306002876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306002877 catalytic residue [active] 869306002878 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 869306002879 TPP-binding site [chemical binding]; other site 869306002880 dimer interface [polypeptide binding]; other site 869306002881 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 869306002882 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 869306002883 PYR/PP interface [polypeptide binding]; other site 869306002884 dimer interface [polypeptide binding]; other site 869306002885 TPP binding site [chemical binding]; other site 869306002886 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869306002887 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 869306002888 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 869306002889 inhibitor-cofactor binding pocket; inhibition site 869306002890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306002891 catalytic residue [active] 869306002892 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 869306002893 active site 869306002894 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 869306002895 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cd03174 869306002896 active site 869306002897 catalytic residues [active] 869306002898 metal binding site [ion binding]; metal-binding site 869306002899 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 869306002900 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 869306002901 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 869306002902 tetramer interface [polypeptide binding]; other site 869306002903 active site 869306002904 Mg2+/Mn2+ binding site [ion binding]; other site 869306002905 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 869306002906 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 869306002907 PYR/PP interface [polypeptide binding]; other site 869306002908 dimer interface [polypeptide binding]; other site 869306002909 TPP binding site [chemical binding]; other site 869306002910 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 869306002911 TPP-binding site [chemical binding]; other site 869306002912 hypothetical protein; Validated; Region: PRK07080 869306002913 acyl carrier protein; Provisional; Region: PRK07081 869306002914 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 869306002915 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 869306002916 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306002917 Walker A/P-loop; other site 869306002918 ATP binding site [chemical binding]; other site 869306002919 Q-loop/lid; other site 869306002920 ABC transporter signature motif; other site 869306002921 Walker B; other site 869306002922 D-loop; other site 869306002923 H-loop/switch region; other site 869306002924 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869306002925 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869306002926 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869306002929 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306002930 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 869306002931 non-specific DNA binding site [nucleotide binding]; other site 869306002932 salt bridge; other site 869306002933 sequence-specific DNA binding site [nucleotide binding]; other site 869306002935 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 869306002936 conserved cys residue [active] 869306002937 Phosphotransferase enzyme family; Region: APH; pfam01636 869306002938 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 869306002939 active site 869306002940 ATP binding site [chemical binding]; other site 869306002941 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 869306002942 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 869306002943 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 869306002944 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 869306002945 zinc binding site [ion binding]; other site 869306002946 putative ligand binding site [chemical binding]; other site 869306002947 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869306002948 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 869306002949 TM-ABC transporter signature motif; other site 869306002950 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 869306002951 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306002952 Walker A/P-loop; other site 869306002953 ATP binding site [chemical binding]; other site 869306002954 Q-loop/lid; other site 869306002955 ABC transporter signature motif; other site 869306002956 Walker B; other site 869306002957 D-loop; other site 869306002958 H-loop/switch region; other site 869306002959 DNA primase; Validated; Region: dnaG; PRK05667 869306002960 CHC2 zinc finger; Region: zf-CHC2; pfam01807 869306002961 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 869306002962 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 869306002963 active site 869306002964 metal binding site [ion binding]; metal-binding site 869306002965 interdomain interaction site; other site 869306002966 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 869306002967 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 869306002968 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 869306002969 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 869306002970 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 869306002971 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 869306002972 DNA binding residues [nucleotide binding] 869306002973 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 869306002974 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869306002975 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 869306002976 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869306002977 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 869306002978 putative ADP-binding pocket [chemical binding]; other site 869306002979 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 869306002980 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 869306002981 GTPase CgtA; Reviewed; Region: obgE; PRK12297 869306002982 GTP1/OBG; Region: GTP1_OBG; pfam01018 869306002983 Obg GTPase; Region: Obg; cd01898 869306002984 G1 box; other site 869306002985 GTP/Mg2+ binding site [chemical binding]; other site 869306002986 Switch I region; other site 869306002987 G2 box; other site 869306002988 G3 box; other site 869306002989 Switch II region; other site 869306002990 G4 box; other site 869306002991 G5 box; other site 869306002992 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 869306002993 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 869306002994 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 869306002995 hinge; other site 869306002996 active site 869306002997 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306002998 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869306002999 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 869306003000 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306003001 DNA-binding site [nucleotide binding]; DNA binding site 869306003002 DRTGG domain; Region: DRTGG; pfam07085 869306003003 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 869306003004 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 869306003005 active site 2 [active] 869306003006 active site 1 [active] 869306003007 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 869306003008 active site 869306003010 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 869306003011 Part of AAA domain; Region: AAA_19; pfam13245 869306003012 Family description; Region: UvrD_C_2; pfam13538 869306003013 hypothetical protein; Reviewed; Region: PRK00024 869306003014 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 869306003015 MPN+ (JAMM) motif; other site 869306003016 Zinc-binding site [ion binding]; other site 869306003017 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 869306003018 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 869306003019 catalytic triad [active] 869306003020 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 869306003021 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 869306003022 CoA binding domain; Region: CoA_binding; pfam02629 869306003023 Putative amino acid metabolism; Region: DUF1831; pfam08866 869306003024 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 869306003025 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 869306003026 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869306003027 catalytic residue [active] 869306003028 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 869306003029 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 869306003030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306003031 active site 869306003032 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 869306003033 putative active site [active] 869306003034 putative metal binding residues [ion binding]; other site 869306003035 signature motif; other site 869306003036 putative triphosphate binding site [ion binding]; other site 869306003037 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 869306003038 synthetase active site [active] 869306003039 NTP binding site [chemical binding]; other site 869306003040 metal binding site [ion binding]; metal-binding site 869306003041 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 869306003042 ATP-NAD kinase; Region: NAD_kinase; pfam01513 869306003043 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869306003044 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 869306003045 RNA binding surface [nucleotide binding]; other site 869306003046 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869306003047 active site 869306003048 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 869306003050 hypothetical protein; Validated; Region: PRK00153 869306003052 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 869306003053 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 869306003054 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 869306003055 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 869306003056 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 869306003057 active site 869306003058 Riboflavin kinase; Region: Flavokinase; smart00904 869306003059 Uncharacterized conserved protein [Function unknown]; Region: COG1284 869306003060 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869306003061 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869306003062 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 869306003063 EDD domain protein, DegV family; Region: DegV; TIGR00762 869306003064 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869306003065 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 869306003066 IHF dimer interface [polypeptide binding]; other site 869306003067 IHF - DNA interface [nucleotide binding]; other site 869306003068 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869306003069 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306003070 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306003071 ABC transporter; Region: ABC_tran_2; pfam12848 869306003072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306003073 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 869306003074 non-specific DNA binding site [nucleotide binding]; other site 869306003075 salt bridge; other site 869306003076 sequence-specific DNA binding site [nucleotide binding]; other site 869306003077 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 869306003078 H+ Antiporter protein; Region: 2A0121; TIGR00900 869306003079 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 869306003080 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 869306003081 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 869306003082 nucleotide binding pocket [chemical binding]; other site 869306003083 K-X-D-G motif; other site 869306003084 catalytic site [active] 869306003085 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 869306003086 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 869306003087 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 869306003088 Dimer interface [polypeptide binding]; other site 869306003089 BRCT sequence motif; other site 869306003090 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 869306003091 pullulanase, type I; Region: pulA_typeI; TIGR02104 869306003092 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 869306003093 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 869306003094 Ca binding site [ion binding]; other site 869306003095 active site 869306003096 catalytic site [active] 869306003097 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 869306003098 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 869306003099 tetrameric interface [polypeptide binding]; other site 869306003100 activator binding site; other site 869306003101 NADP binding site [chemical binding]; other site 869306003102 substrate binding site [chemical binding]; other site 869306003103 catalytic residues [active] 869306003104 glycogen branching enzyme; Provisional; Region: PRK12313 869306003105 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 869306003106 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 869306003107 active site 869306003108 catalytic site [active] 869306003109 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 869306003110 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 869306003111 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 869306003112 ligand binding site; other site 869306003113 oligomer interface; other site 869306003114 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 869306003115 dimer interface [polypeptide binding]; other site 869306003116 N-terminal domain interface [polypeptide binding]; other site 869306003117 sulfate 1 binding site; other site 869306003118 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 869306003119 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 869306003120 active site 869306003121 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 869306003122 dimer interface [polypeptide binding]; other site 869306003123 N-terminal domain interface [polypeptide binding]; other site 869306003124 sulfate 1 binding site; other site 869306003125 glycogen synthase; Provisional; Region: glgA; PRK00654 869306003126 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 869306003127 ADP-binding pocket [chemical binding]; other site 869306003128 homodimer interface [polypeptide binding]; other site 869306003131 Uncharacterized conserved protein [Function unknown]; Region: COG5506 869306003132 enolase; Provisional; Region: eno; PRK00077 869306003133 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 869306003134 dimer interface [polypeptide binding]; other site 869306003135 metal binding site [ion binding]; metal-binding site 869306003136 substrate binding pocket [chemical binding]; other site 869306003139 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 869306003140 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 869306003141 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 869306003142 Part of AAA domain; Region: AAA_19; pfam13245 869306003143 Family description; Region: UvrD_C_2; pfam13538 869306003144 Family description; Region: UvrD_C_2; pfam13538 869306003145 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 869306003146 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869306003147 G5 domain; Region: G5; pfam07501 869306003148 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 869306003149 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 869306003150 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 869306003151 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 869306003152 GTP/Mg2+ binding site [chemical binding]; other site 869306003153 G4 box; other site 869306003154 G5 box; other site 869306003155 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 869306003156 G1 box; other site 869306003157 G1 box; other site 869306003158 GTP/Mg2+ binding site [chemical binding]; other site 869306003159 Switch I region; other site 869306003160 G2 box; other site 869306003161 G2 box; other site 869306003162 G3 box; other site 869306003163 G3 box; other site 869306003164 Switch II region; other site 869306003165 Switch II region; other site 869306003166 G5 box; other site 869306003167 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 869306003168 RNA/DNA hybrid binding site [nucleotide binding]; other site 869306003169 active site 869306003170 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 869306003171 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 869306003172 Cl- selectivity filter; other site 869306003173 Cl- binding residues [ion binding]; other site 869306003174 pore gating glutamate residue; other site 869306003175 dimer interface [polypeptide binding]; other site 869306003176 H+/Cl- coupling transport residue; other site 869306003177 TrkA-C domain; Region: TrkA_C; pfam02080 869306003178 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 869306003179 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 869306003180 active site 869306003181 DNA binding site [nucleotide binding] 869306003182 Int/Topo IB signature motif; other site 869306003183 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 869306003184 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 869306003185 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 869306003186 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 869306003187 E3 interaction surface; other site 869306003188 lipoyl attachment site [posttranslational modification]; other site 869306003189 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 869306003190 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 869306003191 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869306003192 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869306003193 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 869306003194 e3 binding domain; Region: E3_binding; pfam02817 869306003195 e3 binding domain; Region: E3_binding; pfam02817 869306003196 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 869306003197 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 869306003198 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 869306003199 alpha subunit interface [polypeptide binding]; other site 869306003200 TPP binding site [chemical binding]; other site 869306003201 heterodimer interface [polypeptide binding]; other site 869306003202 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869306003203 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 869306003204 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 869306003205 tetramer interface [polypeptide binding]; other site 869306003206 TPP-binding site [chemical binding]; other site 869306003207 heterodimer interface [polypeptide binding]; other site 869306003208 phosphorylation loop region [posttranslational modification] 869306003209 multidrug efflux protein; Reviewed; Region: PRK01766 869306003210 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 869306003211 cation binding site [ion binding]; other site 869306003212 dihydroorotase; Validated; Region: pyrC; PRK09357 869306003213 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 869306003214 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 869306003215 active site 869306003216 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 869306003217 putative active site [active] 869306003218 nucleotide binding site [chemical binding]; other site 869306003219 nudix motif; other site 869306003220 putative metal binding site [ion binding]; other site 869306003221 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 869306003222 ligand binding site [chemical binding]; other site 869306003223 active site 869306003224 UGI interface [polypeptide binding]; other site 869306003225 catalytic site [active] 869306003226 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 869306003227 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 869306003228 motif II; other site 869306003229 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 869306003230 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869306003231 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306003232 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306003233 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869306003234 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 869306003235 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 869306003236 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 869306003237 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 869306003238 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 869306003239 dimerization domain swap beta strand [polypeptide binding]; other site 869306003240 regulatory protein interface [polypeptide binding]; other site 869306003241 active site 869306003242 regulatory phosphorylation site [posttranslational modification]; other site 869306003243 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 869306003244 catalytic residues [active] 869306003245 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 869306003246 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 869306003247 Class I ribonucleotide reductase; Region: RNR_I; cd01679 869306003248 active site 869306003249 dimer interface [polypeptide binding]; other site 869306003250 catalytic residues [active] 869306003251 effector binding site; other site 869306003252 R2 peptide binding site; other site 869306003253 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 869306003254 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 869306003255 dimer interface [polypeptide binding]; other site 869306003256 putative radical transfer pathway; other site 869306003257 diiron center [ion binding]; other site 869306003258 tyrosyl radical; other site 869306003259 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869306003260 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 869306003261 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869306003262 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 869306003263 beta-galactosidase; Region: BGL; TIGR03356 869306003264 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 869306003265 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869306003266 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 869306003267 active site 869306003268 P-loop; other site 869306003269 phosphorylation site [posttranslational modification] 869306003270 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 869306003271 methionine cluster; other site 869306003272 active site 869306003273 phosphorylation site [posttranslational modification] 869306003274 metal binding site [ion binding]; metal-binding site 869306003275 CAT RNA binding domain; Region: CAT_RBD; smart01061 869306003276 transcriptional antiterminator BglG; Provisional; Region: PRK09772 869306003277 PRD domain; Region: PRD; pfam00874 869306003278 PRD domain; Region: PRD; pfam00874 869306003279 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 869306003280 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 869306003281 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 869306003282 putative substrate binding site [chemical binding]; other site 869306003283 putative ATP binding site [chemical binding]; other site 869306003284 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 869306003285 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 869306003286 N-terminal truncation due to IS insertion 869306003288 C-terminal truncation due to IS insertion 869306003289 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 869306003290 active site 869306003291 phosphorylation site [posttranslational modification] 869306003292 GTP-binding protein LepA; Provisional; Region: PRK05433 869306003293 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 869306003294 G1 box; other site 869306003295 putative GEF interaction site [polypeptide binding]; other site 869306003296 GTP/Mg2+ binding site [chemical binding]; other site 869306003297 Switch I region; other site 869306003298 G2 box; other site 869306003299 G3 box; other site 869306003300 Switch II region; other site 869306003301 G4 box; other site 869306003302 G5 box; other site 869306003303 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 869306003304 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 869306003305 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 869306003306 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 869306003307 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 869306003308 active site 869306003309 metal binding site [ion binding]; metal-binding site 869306003310 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 869306003311 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 869306003312 Walker A/P-loop; other site 869306003313 ATP binding site [chemical binding]; other site 869306003314 Q-loop/lid; other site 869306003315 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 869306003316 ABC transporter signature motif; other site 869306003317 Walker B; other site 869306003318 D-loop; other site 869306003319 H-loop/switch region; other site 869306003320 Arginine repressor [Transcription]; Region: ArgR; COG1438 869306003321 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869306003322 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869306003323 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 869306003324 S4 RNA-binding domain; Region: S4; smart00363 869306003325 RNA binding surface [nucleotide binding]; other site 869306003326 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 869306003327 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 869306003328 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 869306003329 substrate binding pocket [chemical binding]; other site 869306003330 chain length determination region; other site 869306003331 substrate-Mg2+ binding site; other site 869306003332 catalytic residues [active] 869306003333 aspartate-rich region 1; other site 869306003334 active site lid residues [active] 869306003335 aspartate-rich region 2; other site 869306003336 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 869306003337 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 869306003338 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 869306003339 generic binding surface II; other site 869306003340 generic binding surface I; other site 869306003341 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 869306003342 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 869306003343 Sugar specificity; other site 869306003344 Pyrimidine base specificity; other site 869306003345 ATP-binding site [chemical binding]; other site 869306003346 Enterocin A Immunity; Region: EntA_Immun; pfam08951 869306003347 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 869306003348 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 869306003349 RNA binding site [nucleotide binding]; other site 869306003350 active site 869306003351 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 869306003352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 869306003353 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 869306003355 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 869306003356 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 869306003357 active site 869306003358 catalytic site [active] 869306003359 DNA gyrase subunit A; Validated; Region: PRK05560 869306003360 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 869306003361 CAP-like domain; other site 869306003362 active site 869306003363 primary dimer interface [polypeptide binding]; other site 869306003364 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869306003365 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869306003366 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869306003367 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869306003368 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869306003369 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869306003370 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 869306003371 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 869306003372 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869306003373 NAD binding site [chemical binding]; other site 869306003374 dimer interface [polypeptide binding]; other site 869306003375 substrate binding site [chemical binding]; other site 869306003376 Ion channel; Region: Ion_trans_2; pfam07885 869306003377 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 869306003378 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 869306003379 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 869306003380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 869306003381 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 869306003382 putative active site [active] 869306003383 heme pocket [chemical binding]; other site 869306003384 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 869306003385 dimer interface [polypeptide binding]; other site 869306003386 phosphorylation site [posttranslational modification] 869306003387 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 869306003388 ATP binding site [chemical binding]; other site 869306003389 Mg2+ binding site [ion binding]; other site 869306003390 G-X-G motif; other site 869306003391 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306003392 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 869306003393 active site 869306003394 phosphorylation site [posttranslational modification] 869306003395 intermolecular recognition site; other site 869306003396 dimerization interface [polypeptide binding]; other site 869306003397 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 869306003398 DNA binding site [nucleotide binding] 869306003399 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 869306003400 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 869306003401 minor groove reading motif; other site 869306003402 helix-hairpin-helix signature motif; other site 869306003403 substrate binding pocket [chemical binding]; other site 869306003404 active site 869306003405 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 869306003406 DNA binding and oxoG recognition site [nucleotide binding] 869306003407 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 869306003408 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 869306003409 Potassium binding sites [ion binding]; other site 869306003410 Cesium cation binding sites [ion binding]; other site 869306003411 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 869306003412 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 869306003413 Flavoprotein; Region: Flavoprotein; pfam02441 869306003414 Predicted membrane protein [Function unknown]; Region: COG4684 869306003415 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 869306003416 HTH domain; Region: HTH_11; pfam08279 869306003417 3H domain; Region: 3H; pfam02829 869306003418 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 869306003419 putative active site [active] 869306003420 nucleotide binding site [chemical binding]; other site 869306003421 nudix motif; other site 869306003422 putative metal binding site [ion binding]; other site 869306003423 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869306003424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306003425 Coenzyme A binding pocket [chemical binding]; other site 869306003426 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869306003427 excinuclease ABC subunit B; Provisional; Region: PRK05298 869306003428 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 869306003429 ATP binding site [chemical binding]; other site 869306003430 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 869306003431 nucleotide binding region [chemical binding]; other site 869306003432 ATP-binding site [chemical binding]; other site 869306003433 Ultra-violet resistance protein B; Region: UvrB; pfam12344 869306003434 UvrB/uvrC motif; Region: UVR; pfam02151 869306003435 CAAX protease self-immunity; Region: Abi; pfam02517 869306003436 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 869306003437 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306003438 substrate binding pocket [chemical binding]; other site 869306003439 membrane-bound complex binding site; other site 869306003440 hinge residues; other site 869306003441 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 869306003442 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306003443 substrate binding pocket [chemical binding]; other site 869306003444 membrane-bound complex binding site; other site 869306003445 hinge residues; other site 869306003446 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 869306003447 dimer interface [polypeptide binding]; other site 869306003448 conserved gate region; other site 869306003449 putative PBP binding loops; other site 869306003450 ABC-ATPase subunit interface; other site 869306003451 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869306003452 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869306003453 Walker A/P-loop; other site 869306003454 ATP binding site [chemical binding]; other site 869306003455 Q-loop/lid; other site 869306003456 ABC transporter signature motif; other site 869306003457 Walker B; other site 869306003458 D-loop; other site 869306003459 H-loop/switch region; other site 869306003460 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 869306003461 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 869306003462 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 869306003463 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 869306003464 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 869306003465 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 869306003466 P loop; other site 869306003467 GTP binding site [chemical binding]; other site 869306003468 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869306003469 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 869306003470 motif II; other site 869306003471 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869306003472 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869306003473 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 869306003474 active site 869306003475 motif I; other site 869306003476 motif II; other site 869306003477 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869306003478 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 869306003479 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 869306003480 Walker A/P-loop; other site 869306003481 ATP binding site [chemical binding]; other site 869306003482 Q-loop/lid; other site 869306003483 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 869306003484 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 869306003485 ABC transporter signature motif; other site 869306003486 Walker B; other site 869306003487 D-loop; other site 869306003488 H-loop/switch region; other site 869306003489 ribonuclease III; Reviewed; Region: rnc; PRK00102 869306003490 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 869306003491 dimerization interface [polypeptide binding]; other site 869306003492 active site 869306003493 metal binding site [ion binding]; metal-binding site 869306003494 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 869306003495 dsRNA binding site [nucleotide binding]; other site 869306003496 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 869306003497 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 869306003498 active site 869306003499 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 869306003500 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 869306003501 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 869306003502 Walker A motif; other site 869306003503 ATP binding site [chemical binding]; other site 869306003504 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 869306003506 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 869306003507 substrate binding site [chemical binding]; other site 869306003508 Predicted membrane protein [Function unknown]; Region: COG3326 869306003511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 869306003512 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 869306003513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 869306003514 DNA topoisomerase I; Validated; Region: PRK05582 869306003515 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 869306003516 active site 869306003517 interdomain interaction site; other site 869306003518 putative metal-binding site [ion binding]; other site 869306003519 nucleotide binding site [chemical binding]; other site 869306003520 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 869306003521 domain I; other site 869306003522 DNA binding groove [nucleotide binding] 869306003523 phosphate binding site [ion binding]; other site 869306003524 domain II; other site 869306003525 domain III; other site 869306003526 nucleotide binding site [chemical binding]; other site 869306003527 catalytic site [active] 869306003528 domain IV; other site 869306003529 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 869306003530 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 869306003531 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 869306003532 Predicted membrane protein [Function unknown]; Region: COG1808 869306003533 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 869306003534 DNA protecting protein DprA; Region: dprA; TIGR00732 869306003535 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 869306003536 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 869306003537 active site 869306003538 metal-binding site 869306003539 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 869306003540 Phosphotransferase enzyme family; Region: APH; pfam01636 869306003541 active site 869306003542 substrate binding site [chemical binding]; other site 869306003543 ATP binding site [chemical binding]; other site 869306003544 dimer interface [polypeptide binding]; other site 869306003545 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 869306003546 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869306003547 putative NAD(P) binding site [chemical binding]; other site 869306003548 putative catalytic Zn binding site [ion binding]; other site 869306003549 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 869306003550 substrate binding site; other site 869306003551 dimer interface; other site 869306003552 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 869306003553 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 869306003554 LicD family; Region: LicD; cl01378 869306003555 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 869306003556 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 869306003557 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869306003558 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 869306003559 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 869306003560 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869306003561 ATP-grasp domain; Region: ATP-grasp_4; cl17255 869306003562 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 869306003563 IMP binding site; other site 869306003564 dimer interface [polypeptide binding]; other site 869306003565 interdomain contacts; other site 869306003566 partial ornithine binding site; other site 869306003567 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 869306003568 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 869306003569 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 869306003570 catalytic site [active] 869306003571 subunit interface [polypeptide binding]; other site 869306003572 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 869306003573 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 869306003574 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 869306003575 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 869306003576 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306003577 active site 869306003578 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 869306003579 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 869306003580 minor groove reading motif; other site 869306003581 helix-hairpin-helix signature motif; other site 869306003582 substrate binding pocket [chemical binding]; other site 869306003583 active site 869306003584 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 869306003585 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869306003586 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306003587 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306003588 heat shock protein HtpX; Provisional; Region: PRK04897 869306003589 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 869306003590 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 869306003591 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 869306003592 S-adenosylmethionine binding site [chemical binding]; other site 869306003593 uracil transporter; Provisional; Region: PRK10720 869306003594 signal recognition particle protein; Provisional; Region: PRK10867 869306003595 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 869306003596 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 869306003597 P loop; other site 869306003598 GTP binding site [chemical binding]; other site 869306003599 Signal peptide binding domain; Region: SRP_SPB; pfam02978 869306003600 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 869306003601 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 869306003602 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 869306003603 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 869306003604 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869306003605 Zn2+ binding site [ion binding]; other site 869306003606 Mg2+ binding site [ion binding]; other site 869306003607 sugar phosphate phosphatase; Provisional; Region: PRK10513 869306003608 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 869306003609 active site 869306003610 motif I; other site 869306003611 motif II; other site 869306003612 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 869306003613 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 869306003614 camphor resistance protein CrcB; Provisional; Region: PRK14229 869306003615 camphor resistance protein CrcB; Provisional; Region: PRK14221 869306003616 hypothetical protein; Provisional; Region: PRK07248 869306003617 flavodoxin; Validated; Region: PRK07308 869306003618 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 869306003619 DHH family; Region: DHH; pfam01368 869306003620 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 869306003623 glutamate dehydrogenase; Provisional; Region: PRK09414 869306003624 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 869306003625 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 869306003626 NAD(P) binding site [chemical binding]; other site 869306003631 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306003632 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869306003633 Walker A/P-loop; other site 869306003634 ATP binding site [chemical binding]; other site 869306003635 Q-loop/lid; other site 869306003636 ABC transporter signature motif; other site 869306003637 Walker B; other site 869306003638 D-loop; other site 869306003639 H-loop/switch region; other site 869306003643 CAAX protease self-immunity; Region: Abi; pfam02517 869306003644 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 869306003645 ArsC family; Region: ArsC; pfam03960 869306003646 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 869306003647 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 869306003648 core dimer interface [polypeptide binding]; other site 869306003649 L10 interface [polypeptide binding]; other site 869306003650 L11 interface [polypeptide binding]; other site 869306003651 putative EF-Tu interaction site [polypeptide binding]; other site 869306003652 putative EF-G interaction site [polypeptide binding]; other site 869306003653 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 869306003654 23S rRNA interface [nucleotide binding]; other site 869306003655 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 869306003656 chlorohydrolase; Validated; Region: PRK06687 869306003657 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 869306003658 active site 869306003659 putative substrate binding pocket [chemical binding]; other site 869306003660 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869306003661 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306003662 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869306003663 Walker A/P-loop; other site 869306003664 ATP binding site [chemical binding]; other site 869306003665 Q-loop/lid; other site 869306003666 ABC transporter signature motif; other site 869306003667 Walker B; other site 869306003668 D-loop; other site 869306003669 H-loop/switch region; other site 869306003670 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869306003671 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306003672 APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination; Region: APC10-like; cl02148 869306003673 putative ligand binding site [chemical binding]; other site 869306003674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306003675 Walker A/P-loop; other site 869306003676 ATP binding site [chemical binding]; other site 869306003677 Q-loop/lid; other site 869306003678 ABC transporter signature motif; other site 869306003679 Walker B; other site 869306003680 D-loop; other site 869306003681 H-loop/switch region; other site 869306003682 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 869306003683 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 869306003684 SelR domain; Region: SelR; pfam01641 869306003685 homoserine kinase; Provisional; Region: PRK01212 869306003686 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869306003687 homoserine dehydrogenase; Provisional; Region: PRK06349 869306003688 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 869306003689 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 869306003690 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 869306003691 adaptor protein; Provisional; Region: PRK02315 869306003692 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 869306003693 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 869306003694 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 869306003695 active site 869306003696 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869306003697 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 869306003698 putative ADP-binding pocket [chemical binding]; other site 869306003699 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 869306003700 Transcriptional regulator [Transcription]; Region: LytR; COG1316 869306003701 prephenate dehydratase; Provisional; Region: PRK11898 869306003702 Prephenate dehydratase; Region: PDT; pfam00800 869306003703 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 869306003704 putative L-Phe binding site [chemical binding]; other site 869306003705 shikimate kinase; Reviewed; Region: aroK; PRK00131 869306003706 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 869306003707 ADP binding site [chemical binding]; other site 869306003708 magnesium binding site [ion binding]; other site 869306003709 putative shikimate binding site; other site 869306003710 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 869306003711 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 869306003712 hinge; other site 869306003713 active site 869306003714 hypothetical protein; Provisional; Region: PRK13676 869306003715 prephenate dehydrogenase; Validated; Region: PRK06545 869306003716 prephenate dehydrogenase; Validated; Region: PRK08507 869306003717 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 869306003718 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 869306003719 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 869306003720 Tetramer interface [polypeptide binding]; other site 869306003721 active site 869306003722 FMN-binding site [chemical binding]; other site 869306003723 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 869306003724 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 869306003725 active site 869306003726 dimer interface [polypeptide binding]; other site 869306003727 metal binding site [ion binding]; metal-binding site 869306003728 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 869306003729 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 869306003730 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 869306003731 shikimate binding site; other site 869306003732 NAD(P) binding site [chemical binding]; other site 869306003733 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 869306003734 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 869306003735 active site 869306003736 catalytic residue [active] 869306003737 dimer interface [polypeptide binding]; other site 869306003738 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 869306003739 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 869306003740 putative RNA binding site [nucleotide binding]; other site 869306003741 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 869306003743 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 869306003744 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869306003745 Walker A/P-loop; other site 869306003746 ATP binding site [chemical binding]; other site 869306003747 Q-loop/lid; other site 869306003748 ABC transporter signature motif; other site 869306003749 Walker B; other site 869306003750 D-loop; other site 869306003751 H-loop/switch region; other site 869306003752 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 869306003753 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 869306003754 active site 869306003755 Na/Ca binding site [ion binding]; other site 869306003756 catalytic site [active] 869306003757 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 869306003758 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 869306003759 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 869306003760 motif 1; other site 869306003761 active site 869306003762 motif 2; other site 869306003763 motif 3; other site 869306003764 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 869306003765 DHHA1 domain; Region: DHHA1; pfam02272 869306003766 Uncharacterized conserved protein [Function unknown]; Region: COG4894 869306003767 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 869306003768 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 869306003769 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869306003770 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 869306003771 dimer interface [polypeptide binding]; other site 869306003772 conserved gate region; other site 869306003773 putative PBP binding loops; other site 869306003774 ABC-ATPase subunit interface; other site 869306003775 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 869306003776 dimer interface [polypeptide binding]; other site 869306003777 conserved gate region; other site 869306003778 putative PBP binding loops; other site 869306003779 ABC-ATPase subunit interface; other site 869306003780 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869306003781 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 869306003782 Walker A/P-loop; other site 869306003783 ATP binding site [chemical binding]; other site 869306003784 Q-loop/lid; other site 869306003785 ABC transporter signature motif; other site 869306003786 Walker B; other site 869306003787 D-loop; other site 869306003788 H-loop/switch region; other site 869306003789 TOBE domain; Region: TOBE_2; pfam08402 869306003790 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 869306003791 FAD binding domain; Region: FAD_binding_4; pfam01565 869306003792 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 869306003794 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 869306003795 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 869306003796 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306003797 DNA-binding site [nucleotide binding]; DNA binding site 869306003798 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 869306003799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306003800 homodimer interface [polypeptide binding]; other site 869306003801 catalytic residue [active] 869306003802 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 869306003803 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306003804 substrate binding pocket [chemical binding]; other site 869306003805 membrane-bound complex binding site; other site 869306003806 hinge residues; other site 869306003807 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 869306003808 PhoU domain; Region: PhoU; pfam01895 869306003809 PhoU domain; Region: PhoU; pfam01895 869306003810 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 869306003811 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869306003812 Walker A/P-loop; other site 869306003813 ATP binding site [chemical binding]; other site 869306003814 Q-loop/lid; other site 869306003815 ABC transporter signature motif; other site 869306003816 Walker B; other site 869306003817 D-loop; other site 869306003818 H-loop/switch region; other site 869306003819 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 869306003820 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869306003821 Walker A/P-loop; other site 869306003822 ATP binding site [chemical binding]; other site 869306003823 Q-loop/lid; other site 869306003824 ABC transporter signature motif; other site 869306003825 Walker B; other site 869306003826 D-loop; other site 869306003827 H-loop/switch region; other site 869306003828 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 869306003829 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 869306003830 dimer interface [polypeptide binding]; other site 869306003831 conserved gate region; other site 869306003832 putative PBP binding loops; other site 869306003833 ABC-ATPase subunit interface; other site 869306003834 sulfate transport protein; Provisional; Region: cysT; CHL00187 869306003835 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 869306003836 dimer interface [polypeptide binding]; other site 869306003837 conserved gate region; other site 869306003838 putative PBP binding loops; other site 869306003839 ABC-ATPase subunit interface; other site 869306003840 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 869306003841 phosphate binding protein; Region: ptsS_2; TIGR02136 869306003842 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 869306003843 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 869306003844 S-adenosylmethionine binding site [chemical binding]; other site 869306003845 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 869306003846 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 869306003847 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 869306003848 active site 869306003849 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 869306003850 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 869306003851 ArsC family; Region: ArsC; pfam03960 869306003852 putative catalytic residues [active] 869306003853 thiol/disulfide switch; other site 869306003854 Predicted membrane protein [Function unknown]; Region: COG4478 869306003855 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 869306003856 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 869306003857 active site 869306003858 motif I; other site 869306003859 motif II; other site 869306003860 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 869306003861 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 869306003862 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 869306003863 active site 869306003864 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 869306003865 active site 869306003866 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 869306003867 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 869306003868 FeS/SAM binding site; other site 869306003869 HemN C-terminal domain; Region: HemN_C; pfam06969 869306003870 YtxH-like protein; Region: YtxH; pfam12732 869306003871 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 869306003872 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 869306003873 HPr kinase/phosphorylase; Provisional; Region: PRK05428 869306003874 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 869306003875 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 869306003876 Hpr binding site; other site 869306003877 active site 869306003878 homohexamer subunit interaction site [polypeptide binding]; other site 869306003879 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 869306003880 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 869306003881 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 869306003882 active site 869306003883 trimer interface [polypeptide binding]; other site 869306003884 allosteric site; other site 869306003885 active site lid [active] 869306003886 hexamer (dimer of trimers) interface [polypeptide binding]; other site 869306003887 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 869306003888 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 869306003889 Coordinates of the gene determined using RNA-seq and GC frame plot information; the start codon is CTG, hence this feature is marked as a pseudogene 869306003890 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306003891 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869306003892 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 869306003893 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 869306003894 homodimer interface [polypeptide binding]; other site 869306003895 NAD binding pocket [chemical binding]; other site 869306003896 ATP binding pocket [chemical binding]; other site 869306003897 Mg binding site [ion binding]; other site 869306003898 active-site loop [active] 869306003899 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 869306003900 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 869306003901 active site 869306003902 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 869306003903 non-specific DNA binding site [nucleotide binding]; other site 869306003904 salt bridge; other site 869306003905 sequence-specific DNA binding site [nucleotide binding]; other site 869306003908 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 869306003909 CHY zinc finger; Region: zf-CHY; pfam05495 869306003910 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 869306003911 Peptidase family U32; Region: Peptidase_U32; pfam01136 869306003913 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 869306003914 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 869306003915 S-adenosylmethionine binding site [chemical binding]; other site 869306003916 Helix-turn-helix domain; Region: HTH_18; pfam12833 869306003917 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869306003918 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869306003919 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306003920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306003921 Walker A/P-loop; other site 869306003922 ATP binding site [chemical binding]; other site 869306003923 Q-loop/lid; other site 869306003924 ABC transporter signature motif; other site 869306003925 Walker B; other site 869306003926 D-loop; other site 869306003927 H-loop/switch region; other site 869306003928 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869306003929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306003930 Walker A/P-loop; other site 869306003931 ATP binding site [chemical binding]; other site 869306003932 Q-loop/lid; other site 869306003933 ABC transporter signature motif; other site 869306003934 Walker B; other site 869306003935 D-loop; other site 869306003936 H-loop/switch region; other site 869306003937 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 869306003938 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869306003939 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869306003940 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869306003941 Walker A/P-loop; other site 869306003942 ATP binding site [chemical binding]; other site 869306003943 Q-loop/lid; other site 869306003944 ABC transporter signature motif; other site 869306003945 Walker B; other site 869306003946 D-loop; other site 869306003947 H-loop/switch region; other site 869306003948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306003949 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 869306003950 Walker A/P-loop; other site 869306003951 ATP binding site [chemical binding]; other site 869306003952 Q-loop/lid; other site 869306003953 ABC transporter signature motif; other site 869306003954 Walker B; other site 869306003955 D-loop; other site 869306003956 H-loop/switch region; other site 869306003959 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 869306003960 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 869306003962 GMP synthase; Reviewed; Region: guaA; PRK00074 869306003963 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 869306003964 AMP/PPi binding site [chemical binding]; other site 869306003965 candidate oxyanion hole; other site 869306003966 catalytic triad [active] 869306003967 potential glutamine specificity residues [chemical binding]; other site 869306003968 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 869306003969 ATP Binding subdomain [chemical binding]; other site 869306003970 Dimerization subdomain; other site 869306003971 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869306003972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306003973 DNA-binding site [nucleotide binding]; DNA binding site 869306003974 UTRA domain; Region: UTRA; pfam07702 869306003975 EamA-like transporter family; Region: EamA; pfam00892 869306003976 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 869306003977 Beta-lactamase; Region: Beta-lactamase; pfam00144 869306003978 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 869306003979 active site 869306003980 catalytic triad [active] 869306003981 oxyanion hole [active] 869306003982 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869306003983 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 869306003984 active site 869306003985 motif I; other site 869306003986 motif II; other site 869306003987 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 869306003989 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 869306003990 active site 869306003991 catalytic residues [active] 869306003992 metal binding site [ion binding]; metal-binding site 869306003993 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 869306003994 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 869306003995 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 869306003996 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 869306003997 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869306003998 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869306003999 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 869306004000 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869306004001 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869306004002 Walker A/P-loop; other site 869306004003 ATP binding site [chemical binding]; other site 869306004004 Q-loop/lid; other site 869306004005 ABC transporter signature motif; other site 869306004006 Walker B; other site 869306004007 D-loop; other site 869306004008 H-loop/switch region; other site 869306004009 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 869306004010 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 869306004011 ABC-ATPase subunit interface; other site 869306004012 putative PBP binding loops; other site 869306004013 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 869306004014 putative ArsC-like catalytic residues; other site 869306004015 putative TRX-like catalytic residues [active] 869306004016 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 869306004017 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 869306004018 DNA binding site [nucleotide binding] 869306004019 active site 869306004020 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869306004021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 869306004022 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 869306004023 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 869306004024 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 869306004025 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 869306004026 predicted active site [active] 869306004027 catalytic triad [active] 869306004028 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 869306004029 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 869306004030 active site 869306004031 multimer interface [polypeptide binding]; other site 869306004032 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 869306004033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869306004034 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869306004035 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 869306004036 ApbE family; Region: ApbE; pfam02424 869306004037 Predicted flavoprotein [General function prediction only]; Region: COG0431 869306004038 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 869306004040 hypothetical protein; Provisional; Region: PRK02539 869306004041 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 869306004042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 869306004043 DALR anticodon binding domain; Region: DALR_1; pfam05746 869306004044 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 869306004045 dimer interface [polypeptide binding]; other site 869306004046 motif 1; other site 869306004047 active site 869306004048 motif 2; other site 869306004049 motif 3; other site 869306004050 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 869306004051 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 869306004052 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 869306004053 active site 869306004054 catalytic tetrad [active] 869306004055 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 869306004056 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 869306004057 NodB motif; other site 869306004058 active site 869306004059 catalytic site [active] 869306004060 Zn binding site [ion binding]; other site 869306004061 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 869306004062 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 869306004063 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869306004064 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 869306004065 DEAD-like helicases superfamily; Region: DEXDc; smart00487 869306004066 ATP binding site [chemical binding]; other site 869306004067 putative Mg++ binding site [ion binding]; other site 869306004068 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 869306004069 nucleotide binding region [chemical binding]; other site 869306004070 ATP-binding site [chemical binding]; other site 869306004072 elongation factor Tu; Reviewed; Region: PRK00049 869306004073 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 869306004074 G1 box; other site 869306004075 GEF interaction site [polypeptide binding]; other site 869306004076 GTP/Mg2+ binding site [chemical binding]; other site 869306004077 Switch I region; other site 869306004078 G2 box; other site 869306004079 G3 box; other site 869306004080 Switch II region; other site 869306004081 G4 box; other site 869306004082 G5 box; other site 869306004083 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 869306004084 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 869306004085 Antibiotic Binding Site [chemical binding]; other site 869306004086 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 869306004087 amphipathic channel; other site 869306004088 Asn-Pro-Ala signature motifs; other site 869306004091 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 869306004092 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 869306004093 active site 869306004094 substrate binding site [chemical binding]; other site 869306004095 metal binding site [ion binding]; metal-binding site 869306004096 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 869306004097 catalytic residues [active] 869306004098 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869306004099 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 869306004100 substrate binding pocket [chemical binding]; other site 869306004101 membrane-bound complex binding site; other site 869306004102 hinge residues; other site 869306004103 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306004104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306004105 Walker A/P-loop; other site 869306004106 ATP binding site [chemical binding]; other site 869306004107 Q-loop/lid; other site 869306004108 ABC transporter signature motif; other site 869306004109 Walker B; other site 869306004110 D-loop; other site 869306004111 H-loop/switch region; other site 869306004112 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 869306004113 dimer interface [polypeptide binding]; other site 869306004114 conserved gate region; other site 869306004115 putative PBP binding loops; other site 869306004116 ABC-ATPase subunit interface; other site 869306004117 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 869306004118 TPR motif; other site 869306004119 binding surface 869306004120 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 869306004121 binding surface 869306004122 TPR motif; other site 869306004123 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 869306004124 Domain of unknown function DUF20; Region: UPF0118; pfam01594 869306004125 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 869306004126 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 869306004127 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 869306004128 gamma subunit interface [polypeptide binding]; other site 869306004129 epsilon subunit interface [polypeptide binding]; other site 869306004130 LBP interface [polypeptide binding]; other site 869306004131 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 869306004132 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 869306004133 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 869306004134 alpha subunit interaction interface [polypeptide binding]; other site 869306004135 Walker A motif; other site 869306004136 ATP binding site [chemical binding]; other site 869306004137 Walker B motif; other site 869306004138 inhibitor binding site; inhibition site 869306004139 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 869306004140 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 869306004141 core domain interface [polypeptide binding]; other site 869306004142 delta subunit interface [polypeptide binding]; other site 869306004143 epsilon subunit interface [polypeptide binding]; other site 869306004144 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 869306004145 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 869306004146 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 869306004147 beta subunit interaction interface [polypeptide binding]; other site 869306004148 Walker A motif; other site 869306004149 ATP binding site [chemical binding]; other site 869306004150 Walker B motif; other site 869306004151 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 869306004152 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 869306004153 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 869306004154 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 869306004155 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 869306004156 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 869306004157 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 869306004158 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 869306004160 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306004161 Coenzyme A binding pocket [chemical binding]; other site 869306004162 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 869306004163 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 869306004164 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 869306004165 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 869306004166 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 869306004167 dimerization interface [polypeptide binding]; other site 869306004168 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 869306004169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306004170 Coenzyme A binding pocket [chemical binding]; other site 869306004171 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306004172 Coenzyme A binding pocket [chemical binding]; other site 869306004173 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 869306004174 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869306004175 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869306004176 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869306004177 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 869306004178 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 869306004179 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 869306004180 ATP binding site [chemical binding]; other site 869306004181 putative Mg++ binding site [ion binding]; other site 869306004182 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 869306004183 nucleotide binding region [chemical binding]; other site 869306004184 ATP-binding site [chemical binding]; other site 869306004185 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 869306004186 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 869306004187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306004188 homodimer interface [polypeptide binding]; other site 869306004189 catalytic residue [active] 869306004190 cystathionine gamma-synthase; Reviewed; Region: PRK07269 869306004191 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 869306004192 homodimer interface [polypeptide binding]; other site 869306004193 substrate-cofactor binding pocket; other site 869306004194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306004195 catalytic residue [active] 869306004197 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 869306004198 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 869306004199 peptide binding site [polypeptide binding]; other site 869306004200 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 869306004201 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 869306004202 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 869306004203 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869306004204 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869306004205 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869306004206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 869306004207 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 869306004208 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 869306004209 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 869306004210 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 869306004211 DHH family; Region: DHH; pfam01368 869306004212 DHHA2 domain; Region: DHHA2; pfam02833 869306004213 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 869306004214 GIY-YIG motif/motif A; other site 869306004215 putative active site [active] 869306004216 putative metal binding site [ion binding]; other site 869306004217 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 869306004218 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 869306004219 S-adenosylmethionine binding site [chemical binding]; other site 869306004220 hypothetical protein; Provisional; Region: PRK07252 869306004221 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 869306004222 RNA binding site [nucleotide binding]; other site 869306004223 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 869306004224 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869306004225 active site 869306004226 motif I; other site 869306004227 motif II; other site 869306004228 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 869306004229 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 869306004230 active site 869306004231 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 869306004232 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 869306004233 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 869306004234 dimer interface [polypeptide binding]; other site 869306004235 ssDNA binding site [nucleotide binding]; other site 869306004236 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869306004237 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 869306004238 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 869306004239 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 869306004240 putative dimer interface [polypeptide binding]; other site 869306004241 putative anticodon binding site; other site 869306004242 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 869306004243 homodimer interface [polypeptide binding]; other site 869306004244 motif 1; other site 869306004245 motif 2; other site 869306004246 active site 869306004247 motif 3; other site 869306004248 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 869306004249 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869306004250 aspartate aminotransferase; Provisional; Region: PRK05764 869306004251 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 869306004252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306004253 homodimer interface [polypeptide binding]; other site 869306004254 catalytic residue [active] 869306004255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 869306004256 Predicted flavoprotein [General function prediction only]; Region: COG0431 869306004257 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 869306004258 hypothetical protein; Validated; Region: PRK02101 869306004259 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 869306004260 active site 869306004261 catalytic residues [active] 869306004262 metal binding site [ion binding]; metal-binding site 869306004263 putative S-transferase; Provisional; Region: PRK11752 869306004264 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 869306004265 C-terminal domain interface [polypeptide binding]; other site 869306004266 GSH binding site (G-site) [chemical binding]; other site 869306004267 dimer interface [polypeptide binding]; other site 869306004268 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 869306004269 N-terminal domain interface [polypeptide binding]; other site 869306004270 dimer interface [polypeptide binding]; other site 869306004271 substrate binding pocket (H-site) [chemical binding]; other site 869306004272 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 869306004273 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 869306004274 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869306004275 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 869306004276 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 869306004277 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 869306004278 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 869306004279 Cation efflux family; Region: Cation_efflux; pfam01545 869306004280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 869306004281 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869306004282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306004283 Walker A/P-loop; other site 869306004284 ATP binding site [chemical binding]; other site 869306004285 Q-loop/lid; other site 869306004286 ABC transporter signature motif; other site 869306004287 Walker B; other site 869306004288 D-loop; other site 869306004289 H-loop/switch region; other site 869306004290 ABC transporter; Region: ABC_tran_2; pfam12848 869306004291 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306004292 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 869306004293 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 869306004294 active site 869306004295 NTP binding site [chemical binding]; other site 869306004296 metal binding triad [ion binding]; metal-binding site 869306004297 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 869306004298 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 869306004299 dihydrodipicolinate reductase; Provisional; Region: PRK00048 869306004300 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 869306004301 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 869306004302 EDD domain protein, DegV family; Region: DegV; TIGR00762 869306004303 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869306004304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 869306004305 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 869306004306 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 869306004307 active site 869306004308 substrate binding site [chemical binding]; other site 869306004309 metal binding site [ion binding]; metal-binding site 869306004310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 869306004311 YbbR-like protein; Region: YbbR; pfam07949 869306004312 Uncharacterized conserved protein [Function unknown]; Region: COG1624 869306004313 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 869306004314 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 869306004315 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869306004316 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869306004317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 869306004318 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 869306004319 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 869306004320 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 869306004321 dimer interface [polypeptide binding]; other site 869306004322 phosphate binding site [ion binding]; other site 869306004323 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 869306004324 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 869306004325 homotrimer interaction site [polypeptide binding]; other site 869306004326 putative active site [active] 869306004327 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 869306004328 G1 box; other site 869306004329 GTP/Mg2+ binding site [chemical binding]; other site 869306004330 Switch I region; other site 869306004331 G2 box; other site 869306004332 G3 box; other site 869306004333 Switch II region; other site 869306004334 G4 box; other site 869306004335 G5 box; other site 869306004336 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 869306004337 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 869306004338 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 869306004339 Walker A motif; other site 869306004340 ATP binding site [chemical binding]; other site 869306004341 Walker B motif; other site 869306004342 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 869306004343 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 869306004344 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 869306004345 folate binding site [chemical binding]; other site 869306004346 NADP+ binding site [chemical binding]; other site 869306004347 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 869306004348 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 869306004349 dimerization interface [polypeptide binding]; other site 869306004350 DPS ferroxidase diiron center [ion binding]; other site 869306004351 ion pore; other site 869306004353 triosephosphate isomerase; Provisional; Region: PRK14567 869306004354 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 869306004355 substrate binding site [chemical binding]; other site 869306004356 dimer interface [polypeptide binding]; other site 869306004357 catalytic triad [active] 869306004358 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 869306004359 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 869306004360 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 869306004361 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 869306004362 proposed active site lysine [active] 869306004363 conserved cys residue [active] 869306004364 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306004365 active site 869306004366 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869306004367 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 869306004368 S-adenosylmethionine binding site [chemical binding]; other site 869306004369 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 869306004370 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 869306004371 Walker A/P-loop; other site 869306004372 ATP binding site [chemical binding]; other site 869306004373 Q-loop/lid; other site 869306004374 ABC transporter signature motif; other site 869306004375 Walker B; other site 869306004376 D-loop; other site 869306004377 H-loop/switch region; other site 869306004378 TOBE domain; Region: TOBE_2; pfam08402 869306004379 Isochorismatase family; Region: Isochorismatase; pfam00857 869306004380 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 869306004381 catalytic triad [active] 869306004382 conserved cis-peptide bond; other site 869306004383 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 869306004384 CodY GAF-like domain; Region: CodY; pfam06018 869306004385 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 869306004386 putative DNA binding site [nucleotide binding]; other site 869306004387 putative Zn2+ binding site [ion binding]; other site 869306004388 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 869306004389 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 869306004390 ATP binding site [chemical binding]; other site 869306004391 Mg++ binding site [ion binding]; other site 869306004392 motif III; other site 869306004393 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 869306004394 nucleotide binding region [chemical binding]; other site 869306004395 ATP-binding site [chemical binding]; other site 869306004396 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 869306004397 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 869306004398 putative substrate translocation pore; other site 869306004399 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 869306004400 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 869306004401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869306004402 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869306004403 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 869306004404 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869306004405 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 869306004406 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 869306004407 catalytic triad [active] 869306004408 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 869306004409 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 869306004410 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 869306004411 active site 869306004412 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869306004413 putative transposase OrfB; Reviewed; Region: PHA02517 869306004414 HTH-like domain; Region: HTH_21; pfam13276 869306004415 Integrase core domain; Region: rve; pfam00665 869306004416 Integrase core domain; Region: rve_2; pfam13333 869306004418 Predicted membrane protein [Function unknown]; Region: COG4720 869306004419 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 869306004420 dimer interface [polypeptide binding]; other site 869306004421 substrate binding site [chemical binding]; other site 869306004422 ATP binding site [chemical binding]; other site 869306004423 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 869306004424 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 869306004425 dimerization interface 3.5A [polypeptide binding]; other site 869306004426 active site 869306004427 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 869306004428 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 869306004429 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 869306004430 PhnA protein; Region: PhnA; pfam03831 869306004431 cytidylate kinase; Provisional; Region: cmk; PRK00023 869306004432 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 869306004433 CMP-binding site; other site 869306004434 The sites determining sugar specificity; other site 869306004435 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 869306004436 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 869306004437 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 869306004438 Ligand binding site; other site 869306004439 Putative Catalytic site; other site 869306004440 DXD motif; other site 869306004441 UDP-glucose 4-epimerase; Region: PLN02240 869306004442 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 869306004443 NAD binding site [chemical binding]; other site 869306004444 homodimer interface [polypeptide binding]; other site 869306004445 active site 869306004446 substrate binding site [chemical binding]; other site 869306004447 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 869306004448 Uncharacterized conserved protein [Function unknown]; Region: COG0327 869306004449 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 869306004450 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 869306004451 Family of unknown function (DUF633); Region: DUF633; pfam04816 869306004453 putative transposase OrfB; Reviewed; Region: PHA02517 869306004454 HTH-like domain; Region: HTH_21; pfam13276 869306004455 Integrase core domain; Region: rve; pfam00665 869306004456 Integrase core domain; Region: rve_2; pfam13333 869306004458 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 869306004459 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 869306004460 TPP-binding site [chemical binding]; other site 869306004461 dimer interface [polypeptide binding]; other site 869306004462 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 869306004463 PYR/PP interface [polypeptide binding]; other site 869306004464 dimer interface [polypeptide binding]; other site 869306004465 TPP binding site [chemical binding]; other site 869306004466 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869306004467 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 869306004468 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 869306004469 substrate binding site [chemical binding]; other site 869306004470 hexamer interface [polypeptide binding]; other site 869306004471 metal binding site [ion binding]; metal-binding site 869306004472 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 869306004473 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869306004474 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 869306004475 active site 869306004476 P-loop; other site 869306004477 phosphorylation site [posttranslational modification] 869306004478 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 869306004479 active site 869306004480 phosphorylation site [posttranslational modification] 869306004481 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 869306004482 active site 869306004483 phosphorylation site [posttranslational modification] 869306004484 HTH domain; Region: HTH_11; pfam08279 869306004485 Mga helix-turn-helix domain; Region: Mga; pfam05043 869306004486 PRD domain; Region: PRD; pfam00874 869306004487 PRD domain; Region: PRD; pfam00874 869306004488 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 869306004489 active site 869306004490 P-loop; other site 869306004491 phosphorylation site [posttranslational modification] 869306004492 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 869306004493 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869306004494 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 869306004495 motif II; other site 869306004496 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 869306004497 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 869306004498 putative acyl-acceptor binding pocket; other site 869306004499 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 869306004500 Cadmium resistance transporter; Region: Cad; pfam03596 869306004501 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 869306004502 16S/18S rRNA binding site [nucleotide binding]; other site 869306004503 S13e-L30e interaction site [polypeptide binding]; other site 869306004504 25S rRNA binding site [nucleotide binding]; other site 869306004505 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 869306004506 NADH(P)-binding; Region: NAD_binding_10; pfam13460 869306004507 NAD binding site [chemical binding]; other site 869306004508 substrate binding site [chemical binding]; other site 869306004509 putative active site [active] 869306004510 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 869306004511 metal binding site [ion binding]; metal-binding site 869306004512 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 869306004513 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 869306004514 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 869306004515 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 869306004516 active site 869306004517 dimer interface [polypeptide binding]; other site 869306004518 motif 1; other site 869306004519 motif 2; other site 869306004520 motif 3; other site 869306004521 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 869306004522 anticodon binding site; other site 869306004523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869306004524 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 869306004525 ATP binding site [chemical binding]; other site 869306004526 Mg2+ binding site [ion binding]; other site 869306004527 G-X-G motif; other site 869306004528 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306004529 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 869306004530 active site 869306004531 phosphorylation site [posttranslational modification] 869306004532 intermolecular recognition site; other site 869306004533 dimerization interface [polypeptide binding]; other site 869306004534 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 869306004535 DNA binding site [nucleotide binding] 869306004536 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 869306004537 nucleophilic elbow; other site 869306004538 catalytic triad; other site 869306004539 Predicted transcriptional regulator [Transcription]; Region: COG1959 869306004540 Transcriptional regulator; Region: Rrf2; pfam02082 869306004542 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 869306004543 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 869306004544 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 869306004545 FeoA domain; Region: FeoA; pfam04023 869306004547 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 869306004548 putative active site [active] 869306004549 dimerization interface [polypeptide binding]; other site 869306004550 putative tRNAtyr binding site [nucleotide binding]; other site 869306004551 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 869306004552 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869306004553 Zn2+ binding site [ion binding]; other site 869306004554 Mg2+ binding site [ion binding]; other site 869306004555 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 869306004556 synthetase active site [active] 869306004557 NTP binding site [chemical binding]; other site 869306004558 metal binding site [ion binding]; metal-binding site 869306004559 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 869306004560 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 869306004561 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 869306004562 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 869306004563 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 869306004564 active site 869306004565 Zn binding site [ion binding]; other site 869306004566 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 869306004567 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 869306004568 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 869306004569 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 869306004570 ABC-ATPase subunit interface; other site 869306004571 dimer interface [polypeptide binding]; other site 869306004572 putative PBP binding regions; other site 869306004573 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869306004574 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 869306004575 metal binding site [ion binding]; metal-binding site 869306004576 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 869306004577 dimer interface [polypeptide binding]; other site 869306004578 catalytic triad [active] 869306004579 peroxidatic and resolving cysteines [active] 869306004581 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306004582 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869306004583 Walker A/P-loop; other site 869306004584 ATP binding site [chemical binding]; other site 869306004585 Q-loop/lid; other site 869306004586 ABC transporter signature motif; other site 869306004587 Walker B; other site 869306004588 D-loop; other site 869306004589 H-loop/switch region; other site 869306004591 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 869306004592 catalytic core [active] 869306004593 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 869306004594 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 869306004595 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869306004596 active site 869306004597 HIGH motif; other site 869306004598 nucleotide binding site [chemical binding]; other site 869306004599 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 869306004600 active site 869306004601 KMSKS motif; other site 869306004602 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 869306004603 tRNA binding surface [nucleotide binding]; other site 869306004604 anticodon binding site; other site 869306004605 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 869306004607 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 869306004608 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 869306004609 RNA binding surface [nucleotide binding]; other site 869306004610 YGGT family; Region: YGGT; pfam02325 869306004611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 869306004612 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 869306004613 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869306004614 catalytic residue [active] 869306004615 cell division protein FtsZ; Validated; Region: PRK09330 869306004616 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 869306004617 nucleotide binding site [chemical binding]; other site 869306004618 SulA interaction site; other site 869306004619 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 869306004620 Cell division protein FtsA; Region: FtsA; smart00842 869306004621 Cell division protein FtsA; Region: FtsA; pfam14450 869306004622 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 869306004623 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 869306004624 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 869306004625 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 869306004626 nudix motif; other site 869306004627 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 869306004628 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869306004629 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869306004630 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869306004631 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 869306004632 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 869306004633 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 869306004634 recombination protein RecR; Reviewed; Region: recR; PRK00076 869306004635 RecR protein; Region: RecR; pfam02132 869306004636 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 869306004637 putative active site [active] 869306004638 putative metal-binding site [ion binding]; other site 869306004639 tetramer interface [polypeptide binding]; other site 869306004640 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 869306004641 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 869306004642 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 869306004643 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 869306004644 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 869306004645 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 869306004646 putative active site [active] 869306004647 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869306004648 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869306004649 nucleotide binding site [chemical binding]; other site 869306004650 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 869306004651 Class I aldolases; Region: Aldolase_Class_I; cl17187 869306004652 catalytic residue [active] 869306004653 Protein of unknown function, DUF624; Region: DUF624; pfam04854 869306004654 Domain of unknown function (DUF386); Region: DUF386; pfam04074 869306004655 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869306004656 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 869306004657 dimer interface [polypeptide binding]; other site 869306004658 conserved gate region; other site 869306004659 putative PBP binding loops; other site 869306004660 ABC-ATPase subunit interface; other site 869306004661 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869306004662 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 869306004663 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 869306004664 putative PBP binding loops; other site 869306004665 dimer interface [polypeptide binding]; other site 869306004666 ABC-ATPase subunit interface; other site 869306004667 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869306004668 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869306004669 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 869306004670 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869306004671 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 869306004672 active site turn [active] 869306004673 phosphorylation site [posttranslational modification] 869306004674 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 869306004675 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 869306004676 putative active site cavity [active] 869306004677 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 869306004678 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869306004679 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 869306004680 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 869306004681 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 869306004682 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 869306004683 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 869306004684 Asp-box motif; other site 869306004685 catalytic site [active] 869306004686 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869306004687 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 869306004688 dimer interface [polypeptide binding]; other site 869306004689 conserved gate region; other site 869306004690 putative PBP binding loops; other site 869306004691 ABC-ATPase subunit interface; other site 869306004692 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869306004693 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 869306004694 dimer interface [polypeptide binding]; other site 869306004695 conserved gate region; other site 869306004696 putative PBP binding loops; other site 869306004697 ABC-ATPase subunit interface; other site 869306004698 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869306004699 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869306004700 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 869306004701 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869306004702 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 869306004703 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 869306004704 Asp-box motif; other site 869306004705 catalytic site [active] 869306004706 Procyclic acidic repetitive protein (PARP); Region: Trypan_PARP; pfam05887 869306004707 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 869306004708 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 869306004709 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 869306004710 ssDNA binding site; other site 869306004711 generic binding surface II; other site 869306004712 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 869306004713 ATP binding site [chemical binding]; other site 869306004714 putative Mg++ binding site [ion binding]; other site 869306004715 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 869306004716 nucleotide binding region [chemical binding]; other site 869306004717 ATP-binding site [chemical binding]; other site 869306004718 alanine racemase; Reviewed; Region: alr; PRK00053 869306004719 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 869306004720 active site 869306004721 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869306004722 dimer interface [polypeptide binding]; other site 869306004723 substrate binding site [chemical binding]; other site 869306004724 catalytic residues [active] 869306004725 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 869306004726 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 869306004727 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 869306004728 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 869306004729 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 869306004730 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 869306004731 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 869306004732 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 869306004733 nucleotide binding region [chemical binding]; other site 869306004734 ATP-binding site [chemical binding]; other site 869306004735 SEC-C motif; Region: SEC-C; pfam02810 869306004736 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 869306004737 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869306004738 Walker A/P-loop; other site 869306004739 ATP binding site [chemical binding]; other site 869306004740 Q-loop/lid; other site 869306004741 ABC transporter signature motif; other site 869306004742 Walker B; other site 869306004743 D-loop; other site 869306004744 H-loop/switch region; other site 869306004745 GTP-binding protein Der; Reviewed; Region: PRK00093 869306004746 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 869306004747 G1 box; other site 869306004748 GTP/Mg2+ binding site [chemical binding]; other site 869306004749 Switch I region; other site 869306004750 G2 box; other site 869306004751 Switch II region; other site 869306004752 G3 box; other site 869306004753 G4 box; other site 869306004754 G5 box; other site 869306004755 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 869306004756 G1 box; other site 869306004757 GTP/Mg2+ binding site [chemical binding]; other site 869306004758 Switch I region; other site 869306004759 G2 box; other site 869306004760 G3 box; other site 869306004761 Switch II region; other site 869306004762 G4 box; other site 869306004763 G5 box; other site 869306004764 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 869306004765 dimer interface [polypeptide binding]; other site 869306004766 FMN binding site [chemical binding]; other site 869306004767 NADPH bind site [chemical binding]; other site 869306004768 primosomal protein DnaI; Reviewed; Region: PRK08939 869306004769 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 869306004770 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 869306004771 Walker A motif; other site 869306004772 ATP binding site [chemical binding]; other site 869306004773 Walker B motif; other site 869306004774 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 869306004775 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 869306004776 ATP cone domain; Region: ATP-cone; pfam03477 869306004777 Predicted transcriptional regulators [Transcription]; Region: COG1725 869306004778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306004779 DNA-binding site [nucleotide binding]; DNA binding site 869306004780 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 869306004781 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869306004782 Walker A/P-loop; other site 869306004783 ATP binding site [chemical binding]; other site 869306004784 Q-loop/lid; other site 869306004785 ABC transporter signature motif; other site 869306004786 Walker B; other site 869306004787 D-loop; other site 869306004788 H-loop/switch region; other site 869306004789 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 869306004790 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 869306004791 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306004792 Walker A/P-loop; other site 869306004793 ATP binding site [chemical binding]; other site 869306004794 Q-loop/lid; other site 869306004795 ABC transporter signature motif; other site 869306004796 Walker B; other site 869306004797 D-loop; other site 869306004798 H-loop/switch region; other site 869306004799 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 869306004800 Uncharacterized conserved protein [Function unknown]; Region: COG0398 869306004801 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 869306004802 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869306004803 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869306004804 nucleotide binding site [chemical binding]; other site 869306004805 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 869306004806 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 869306004807 active site turn [active] 869306004808 phosphorylation site [posttranslational modification] 869306004809 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869306004810 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 869306004811 HPr interaction site; other site 869306004812 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869306004813 active site 869306004814 phosphorylation site [posttranslational modification] 869306004815 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 869306004816 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 869306004817 substrate binding [chemical binding]; other site 869306004818 active site 869306004819 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 869306004820 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869306004821 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869306004822 DNA binding site [nucleotide binding] 869306004823 domain linker motif; other site 869306004824 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 869306004825 dimerization interface [polypeptide binding]; other site 869306004826 ligand binding site [chemical binding]; other site 869306004827 sodium binding site [ion binding]; other site 869306004828 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 869306004829 homodimer interface [polypeptide binding]; other site 869306004830 catalytic residues [active] 869306004831 NAD binding site [chemical binding]; other site 869306004832 substrate binding pocket [chemical binding]; other site 869306004833 flexible flap; other site 869306004834 "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 869306004835 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 869306004836 dimer interface [polypeptide binding]; other site 869306004837 active site 869306004838 IS1381 orfs A and B appear to have fused into the same reading frame due to a small deletion 869306004839 Uncharacterized conserved protein [Function unknown]; Region: COG3610 869306004840 Uncharacterized conserved protein [Function unknown]; Region: COG2966 869306004841 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 869306004842 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 869306004843 Catalytic domain of Protein Kinases; Region: PKc; cd00180 869306004844 active site 869306004845 ATP binding site [chemical binding]; other site 869306004846 substrate binding site [chemical binding]; other site 869306004847 activation loop (A-loop); other site 869306004848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 869306004849 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 869306004850 PASTA domain; Region: PASTA; smart00740 869306004851 PASTA domain; Region: PASTA; smart00740 869306004852 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 869306004853 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 869306004854 active site 869306004855 16S rRNA methyltransferase B; Provisional; Region: PRK14902 869306004856 NusB family; Region: NusB; pfam01029 869306004857 putative RNA binding site [nucleotide binding]; other site 869306004858 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 869306004859 S-adenosylmethionine binding site [chemical binding]; other site 869306004860 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 869306004861 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 869306004862 putative active site [active] 869306004863 substrate binding site [chemical binding]; other site 869306004864 putative cosubstrate binding site; other site 869306004865 catalytic site [active] 869306004866 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 869306004867 substrate binding site [chemical binding]; other site 869306004868 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 869306004869 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 869306004870 ATP binding site [chemical binding]; other site 869306004871 putative Mg++ binding site [ion binding]; other site 869306004872 helicase superfamily c-terminal domain; Region: HELICc; smart00490 869306004873 ATP-binding site [chemical binding]; other site 869306004874 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 869306004875 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 869306004876 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 869306004877 catalytic site [active] 869306004878 G-X2-G-X-G-K; other site 869306004880 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 869306004881 hypothetical protein; Provisional; Region: PRK13670 869306004882 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 869306004883 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 869306004884 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 869306004885 S-adenosylmethionine binding site [chemical binding]; other site 869306004886 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 869306004887 Isochorismatase family; Region: Isochorismatase; pfam00857 869306004888 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 869306004889 catalytic triad [active] 869306004890 conserved cis-peptide bond; other site 869306004891 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869306004892 Zn2+ binding site [ion binding]; other site 869306004893 Mg2+ binding site [ion binding]; other site 869306004894 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 869306004895 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 869306004896 active site 869306004897 (T/H)XGH motif; other site 869306004898 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 869306004899 GTPase YqeH; Provisional; Region: PRK13796 869306004900 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 869306004901 GTP/Mg2+ binding site [chemical binding]; other site 869306004902 G4 box; other site 869306004903 G5 box; other site 869306004904 G1 box; other site 869306004905 Switch I region; other site 869306004906 G2 box; other site 869306004907 G3 box; other site 869306004908 Switch II region; other site 869306004909 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 869306004910 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 869306004911 active site 869306004912 motif I; other site 869306004913 motif II; other site 869306004914 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 869306004915 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 869306004916 Cl binding site [ion binding]; other site 869306004917 oligomer interface [polypeptide binding]; other site 869306004918 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 869306004919 Mechanosensitive ion channel; Region: MS_channel; pfam00924 869306004920 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 869306004921 serine/threonine transporter SstT; Provisional; Region: PRK14695 869306004922 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 869306004923 Predicted membrane protein [Function unknown]; Region: COG4129 869306004924 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 869306004925 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 869306004926 MarR family; Region: MarR; pfam01047 869306004927 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 869306004928 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869306004929 catalytic residues [active] 869306004930 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 869306004931 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 869306004932 amphipathic channel; other site 869306004933 Asn-Pro-Ala signature motifs; other site 869306004934 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 869306004935 oligoendopeptidase F; Region: pepF; TIGR00181 869306004936 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 869306004937 Zn binding site [ion binding]; other site 869306004938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 869306004939 RNA methyltransferase, RsmE family; Region: TIGR00046 869306004940 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 869306004941 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 869306004942 S-adenosylmethionine binding site [chemical binding]; other site 869306004943 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 869306004944 nudix motif; other site 869306004945 Peptidase family M50; Region: Peptidase_M50; pfam02163 869306004946 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 869306004947 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 869306004948 recombination factor protein RarA; Reviewed; Region: PRK13342 869306004949 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 869306004950 Walker A motif; other site 869306004951 ATP binding site [chemical binding]; other site 869306004952 Walker B motif; other site 869306004953 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 869306004954 arginine finger; other site 869306004955 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 869306004956 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 869306004957 Int/Topo IB signature motif; other site 869306004958 Replication initiation factor; Region: Rep_trans; pfam02486 869306004959 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 869306004960 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 869306004961 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 869306004962 substrate binding [chemical binding]; other site 869306004963 active site 869306004964 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 869306004965 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869306004966 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869306004967 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 869306004968 dimer interface [polypeptide binding]; other site 869306004969 conserved gate region; other site 869306004970 ABC-ATPase subunit interface; other site 869306004971 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 869306004972 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 869306004973 dimer interface [polypeptide binding]; other site 869306004974 conserved gate region; other site 869306004975 ABC-ATPase subunit interface; other site 869306004976 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869306004977 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869306004978 DNA binding site [nucleotide binding] 869306004979 domain linker motif; other site 869306004980 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 869306004981 dimerization interface [polypeptide binding]; other site 869306004982 ligand binding site [chemical binding]; other site 869306004983 sodium binding site [ion binding]; other site 869306004985 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 869306004986 Mga helix-turn-helix domain; Region: Mga; pfam05043 869306004987 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 869306004988 Predicted membrane protein [Function unknown]; Region: COG2261 869306004989 Small integral membrane protein [Function unknown]; Region: COG5547 869306004990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869306004992 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 869306004993 Uncharacterized conserved protein [Function unknown]; Region: COG1262 869306004994 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 869306004995 arylsulfatase; Provisional; Region: PRK13759 869306004996 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 869306004997 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869306004998 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869306004999 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 869306005000 active site 869306005001 methionine cluster; other site 869306005002 phosphorylation site [posttranslational modification] 869306005003 metal binding site [ion binding]; metal-binding site 869306005004 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 869306005005 active site 869306005006 P-loop; other site 869306005007 phosphorylation site [posttranslational modification] 869306005008 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; cl04270 869306005009 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869306005010 MarR family; Region: MarR_2; pfam12802 869306005011 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869306005012 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 869306005013 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 869306005014 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869306005015 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869306005016 Coenzyme A binding pocket [chemical binding]; other site 869306005017 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 869306005018 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 869306005019 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 869306005020 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306005021 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 869306005022 non-specific DNA binding site [nucleotide binding]; other site 869306005023 salt bridge; other site 869306005024 sequence-specific DNA binding site [nucleotide binding]; other site 869306005025 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 869306005026 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 869306005027 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 869306005028 substrate binding site [chemical binding]; other site 869306005029 active site 869306005030 catalytic residues [active] 869306005031 heterodimer interface [polypeptide binding]; other site 869306005032 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 869306005033 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 869306005034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306005035 catalytic residue [active] 869306005036 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 869306005037 active site 869306005038 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 869306005039 active site 869306005040 ribulose/triose binding site [chemical binding]; other site 869306005041 phosphate binding site [ion binding]; other site 869306005042 substrate (anthranilate) binding pocket [chemical binding]; other site 869306005043 product (indole) binding pocket [chemical binding]; other site 869306005044 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 869306005045 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 869306005046 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 869306005047 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 869306005048 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 869306005049 glutamine binding [chemical binding]; other site 869306005050 catalytic triad [active] 869306005051 anthranilate synthase component I; Provisional; Region: PRK13570 869306005052 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 869306005053 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 869306005054 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869306005055 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869306005056 DNA binding site [nucleotide binding] 869306005057 domain linker motif; other site 869306005058 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 869306005059 putative dimerization interface [polypeptide binding]; other site 869306005060 putative ligand binding site [chemical binding]; other site 869306005061 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 869306005062 MgtC family; Region: MgtC; pfam02308 869306005063 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 869306005064 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 869306005065 dimer interface [polypeptide binding]; other site 869306005066 conserved gate region; other site 869306005067 putative PBP binding loops; other site 869306005068 ABC-ATPase subunit interface; other site 869306005069 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 869306005070 putative PBP binding loops; other site 869306005071 dimer interface [polypeptide binding]; other site 869306005072 ABC-ATPase subunit interface; other site 869306005073 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869306005074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306005075 Walker A/P-loop; other site 869306005076 ATP binding site [chemical binding]; other site 869306005077 Q-loop/lid; other site 869306005078 ABC transporter signature motif; other site 869306005079 Walker B; other site 869306005080 D-loop; other site 869306005081 H-loop/switch region; other site 869306005082 TOBE domain; Region: TOBE; pfam03459 869306005083 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 869306005084 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 869306005085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 869306005086 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 869306005088 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869306005089 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 869306005090 Pectate lyase; Region: Pec_lyase_C; cl01593 869306005091 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 869306005092 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 869306005093 inhibitor-cofactor binding pocket; inhibition site 869306005094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306005095 catalytic residue [active] 869306005096 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 869306005097 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869306005098 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306005099 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869306005100 Walker A/P-loop; other site 869306005101 ATP binding site [chemical binding]; other site 869306005102 Q-loop/lid; other site 869306005103 ABC transporter signature motif; other site 869306005104 Walker B; other site 869306005105 D-loop; other site 869306005106 H-loop/switch region; other site 869306005107 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306005108 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 869306005109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306005110 Walker A/P-loop; other site 869306005111 ATP binding site [chemical binding]; other site 869306005112 Q-loop/lid; other site 869306005113 ABC transporter signature motif; other site 869306005114 Walker B; other site 869306005115 D-loop; other site 869306005116 H-loop/switch region; other site 869306005118 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 869306005119 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 869306005120 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 869306005121 active site 869306005122 putative catalytic site [active] 869306005123 DNA binding site [nucleotide binding] 869306005124 putative phosphate binding site [ion binding]; other site 869306005125 metal binding site A [ion binding]; metal-binding site 869306005126 AP binding site [nucleotide binding]; other site 869306005127 metal binding site B [ion binding]; metal-binding site 869306005128 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 869306005129 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 869306005130 active site 869306005131 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306005132 active site 869306005133 xanthine permease; Region: pbuX; TIGR03173 869306005134 Sulfate transporter family; Region: Sulfate_transp; pfam00916 869306005135 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 869306005136 Dam-replacing family; Region: DRP; pfam06044 869306005137 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 869306005138 CoenzymeA binding site [chemical binding]; other site 869306005139 subunit interaction site [polypeptide binding]; other site 869306005140 PHB binding site; other site 869306005141 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 869306005142 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 869306005143 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 869306005144 galactokinase; Provisional; Region: PRK05322 869306005145 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 869306005146 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869306005147 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869306005148 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 869306005149 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869306005150 DNA binding site [nucleotide binding] 869306005151 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 869306005152 putative dimerization interface [polypeptide binding]; other site 869306005153 putative ligand binding site [chemical binding]; other site 869306005154 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 869306005155 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869306005156 catalytic Zn binding site [ion binding]; other site 869306005157 NAD(P) binding site [chemical binding]; other site 869306005158 structural Zn binding site [ion binding]; other site 869306005159 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 869306005160 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 869306005161 DNA binding residues [nucleotide binding] 869306005162 putative dimer interface [polypeptide binding]; other site 869306005163 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 869306005164 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869306005165 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869306005166 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 869306005167 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 869306005168 dimer interface [polypeptide binding]; other site 869306005169 conserved gate region; other site 869306005170 ABC-ATPase subunit interface; other site 869306005171 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 869306005172 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 869306005173 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869306005174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306005175 Walker A/P-loop; other site 869306005176 ATP binding site [chemical binding]; other site 869306005177 Q-loop/lid; other site 869306005178 ABC transporter signature motif; other site 869306005179 Walker B; other site 869306005180 D-loop; other site 869306005181 H-loop/switch region; other site 869306005183 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 869306005184 Enterocin A Immunity; Region: EntA_Immun; pfam08951 869306005185 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 869306005186 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 869306005187 oligomer interface [polypeptide binding]; other site 869306005188 active site 869306005189 metal binding site [ion binding]; metal-binding site 869306005190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869306005191 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 869306005192 NAD(P) binding site [chemical binding]; other site 869306005193 active site 869306005194 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 869306005195 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 869306005196 ABC-ATPase subunit interface; other site 869306005197 dimer interface [polypeptide binding]; other site 869306005198 putative PBP binding regions; other site 869306005199 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 869306005200 ABC-ATPase subunit interface; other site 869306005201 dimer interface [polypeptide binding]; other site 869306005202 putative PBP binding regions; other site 869306005203 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 869306005204 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 869306005205 Walker A/P-loop; other site 869306005206 ATP binding site [chemical binding]; other site 869306005207 Q-loop/lid; other site 869306005208 ABC transporter signature motif; other site 869306005209 Walker B; other site 869306005210 D-loop; other site 869306005211 H-loop/switch region; other site 869306005212 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 869306005213 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 869306005214 putative ligand binding residues [chemical binding]; other site 869306005215 hypothetical protein; Validated; Region: PRK00041 869306005216 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869306005217 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 869306005218 RNA binding surface [nucleotide binding]; other site 869306005219 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 869306005220 active site 869306005221 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 869306005222 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 869306005223 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 869306005224 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 869306005225 DNA binding site [nucleotide binding] 869306005226 Int/Topo IB signature motif; other site 869306005227 active site 869306005228 catalytic residues [active] 869306005229 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 869306005230 FOG: CBS domain [General function prediction only]; Region: COG0517 869306005231 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 869306005232 active site 869306005233 metal binding site [ion binding]; metal-binding site 869306005234 homotetramer interface [polypeptide binding]; other site 869306005235 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 869306005236 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 869306005237 active site 869306005238 dimerization interface [polypeptide binding]; other site 869306005239 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 869306005240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 869306005241 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 869306005242 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 869306005243 Ca binding site [ion binding]; other site 869306005244 active site 869306005245 catalytic site [active] 869306005246 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 869306005247 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 869306005248 active site turn [active] 869306005249 phosphorylation site [posttranslational modification] 869306005250 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869306005251 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 869306005252 HPr interaction site; other site 869306005253 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869306005254 active site 869306005255 phosphorylation site [posttranslational modification] 869306005256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306005257 DNA-binding site [nucleotide binding]; DNA binding site 869306005258 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 869306005259 UTRA domain; Region: UTRA; pfam07702 869306005261 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 869306005262 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 869306005263 Walker A/P-loop; other site 869306005264 ATP binding site [chemical binding]; other site 869306005265 Q-loop/lid; other site 869306005266 ABC transporter signature motif; other site 869306005267 Walker B; other site 869306005268 D-loop; other site 869306005269 H-loop/switch region; other site 869306005270 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 869306005271 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 869306005272 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 869306005273 Walker A/P-loop; other site 869306005274 ATP binding site [chemical binding]; other site 869306005275 Q-loop/lid; other site 869306005276 ABC transporter signature motif; other site 869306005277 Walker B; other site 869306005278 D-loop; other site 869306005279 H-loop/switch region; other site 869306005280 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 869306005281 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 869306005282 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 869306005283 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 869306005284 dimer interface [polypeptide binding]; other site 869306005285 conserved gate region; other site 869306005286 putative PBP binding loops; other site 869306005287 ABC-ATPase subunit interface; other site 869306005288 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 869306005289 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 869306005290 dimer interface [polypeptide binding]; other site 869306005291 conserved gate region; other site 869306005292 putative PBP binding loops; other site 869306005293 ABC-ATPase subunit interface; other site 869306005294 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 869306005295 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 869306005296 peptide binding site [polypeptide binding]; other site 869306005297 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 869306005298 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 869306005299 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 869306005300 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 869306005301 active site 869306005302 homodimer interface [polypeptide binding]; other site 869306005303 catalytic site [active] 869306005304 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869306005305 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 869306005306 dimer interface [polypeptide binding]; other site 869306005307 conserved gate region; other site 869306005308 putative PBP binding loops; other site 869306005309 ABC-ATPase subunit interface; other site 869306005310 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 869306005311 dimer interface [polypeptide binding]; other site 869306005312 conserved gate region; other site 869306005313 putative PBP binding loops; other site 869306005314 ABC-ATPase subunit interface; other site 869306005315 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869306005316 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869306005317 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869306005318 Melibiase; Region: Melibiase; pfam02065 869306005319 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 869306005320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869306005321 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869306005322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869306005323 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 869306005324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306005325 DNA-binding site [nucleotide binding]; DNA binding site 869306005326 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 869306005327 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 869306005328 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 869306005329 TRAM domain; Region: TRAM; cl01282 869306005330 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 869306005331 S-adenosylmethionine binding site [chemical binding]; other site 869306005332 recombination regulator RecX; Provisional; Region: recX; PRK14135 869306005333 hypothetical protein; Provisional; Region: PRK13662 869306005335 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869306005336 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 869306005337 S-adenosylmethionine binding site [chemical binding]; other site 869306005338 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 869306005339 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 869306005340 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 869306005341 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 869306005342 ring oligomerisation interface [polypeptide binding]; other site 869306005343 ATP/Mg binding site [chemical binding]; other site 869306005344 stacking interactions; other site 869306005345 hinge regions; other site 869306005346 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 869306005347 oligomerisation interface [polypeptide binding]; other site 869306005348 mobile loop; other site 869306005349 roof hairpin; other site 869306005350 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 869306005351 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 869306005352 dimer interface [polypeptide binding]; other site 869306005353 ssDNA binding site [nucleotide binding]; other site 869306005354 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869306005355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869306005356 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 869306005357 NAD(P) binding site [chemical binding]; other site 869306005358 active site 869306005359 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 869306005360 putative tRNA-binding site [nucleotide binding]; other site 869306005361 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 869306005362 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869306005363 catalytic residues [active] 869306005364 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306005365 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 869306005366 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869306005367 LytTr DNA-binding domain; Region: LytTR; pfam04397 869306005368 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 869306005369 active site 869306005370 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 869306005371 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 869306005372 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869306005373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306005374 Walker A/P-loop; other site 869306005375 ATP binding site [chemical binding]; other site 869306005376 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869306005377 Walker A/P-loop; other site 869306005378 ATP binding site [chemical binding]; other site 869306005379 Q-loop/lid; other site 869306005380 ABC transporter signature motif; other site 869306005381 Walker B; other site 869306005382 D-loop; other site 869306005383 H-loop/switch region; other site 869306005385 MarR family; Region: MarR_2; pfam12802 869306005386 Transcriptional regulators [Transcription]; Region: MarR; COG1846 869306005387 hypothetical protein; Provisional; Region: PRK12378 869306005388 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 869306005389 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 869306005390 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 869306005393 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 869306005394 Domain of unknown function (DUF955); Region: DUF955; cl01076 869306005395 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306005396 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 869306005397 non-specific DNA binding site [nucleotide binding]; other site 869306005398 salt bridge; other site 869306005399 sequence-specific DNA binding site [nucleotide binding]; other site 869306005400 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306005401 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 869306005402 amidase catalytic site [active] 869306005403 Zn binding residues [ion binding]; other site 869306005404 substrate binding site [chemical binding]; other site 869306005405 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306005406 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306005407 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 869306005408 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 869306005409 recombinase A; Provisional; Region: recA; PRK09354 869306005410 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 869306005411 hexamer interface [polypeptide binding]; other site 869306005412 Walker A motif; other site 869306005413 ATP binding site [chemical binding]; other site 869306005414 Walker B motif; other site 869306005415 competence damage-inducible protein A; Provisional; Region: PRK00549 869306005416 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 869306005417 putative MPT binding site; other site 869306005418 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 869306005419 Transcriptional regulator [Transcription]; Region: LytR; COG1316 869306005420 putative acetyltransferase YhhY; Provisional; Region: PRK10140 869306005421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869306005422 Coenzyme A binding pocket [chemical binding]; other site 869306005423 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 869306005424 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306005425 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 869306005426 non-specific DNA binding site [nucleotide binding]; other site 869306005427 salt bridge; other site 869306005428 sequence-specific DNA binding site [nucleotide binding]; other site 869306005429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869306005430 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869306005431 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869306005432 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869306005433 Walker A/P-loop; other site 869306005434 ATP binding site [chemical binding]; other site 869306005435 Q-loop/lid; other site 869306005436 ABC transporter signature motif; other site 869306005437 Walker B; other site 869306005438 D-loop; other site 869306005439 H-loop/switch region; other site 869306005440 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 869306005441 active site 869306005442 multimer interface [polypeptide binding]; other site 869306005443 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 869306005444 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 869306005445 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 869306005446 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 869306005447 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 869306005448 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 869306005449 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 869306005450 G-loop; other site 869306005451 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 869306005452 DNA binding site [nucleotide binding] 869306005453 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 869306005454 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 869306005455 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 869306005456 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 869306005457 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 869306005458 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 869306005459 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 869306005460 RPB1 interaction site [polypeptide binding]; other site 869306005461 RPB10 interaction site [polypeptide binding]; other site 869306005462 RPB11 interaction site [polypeptide binding]; other site 869306005463 RPB3 interaction site [polypeptide binding]; other site 869306005464 RPB12 interaction site [polypeptide binding]; other site 869306005465 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 869306005466 Domain of unknown function DUF21; Region: DUF21; pfam01595 869306005467 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 869306005468 Transporter associated domain; Region: CorC_HlyC; smart01091 869306005469 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 869306005470 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 869306005471 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 869306005472 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 869306005473 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 869306005474 hinge; other site 869306005475 active site 869306005476 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 869306005477 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 869306005478 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 869306005479 protein binding site [polypeptide binding]; other site 869306005480 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 869306005481 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 869306005482 active site 869306005483 (T/H)XGH motif; other site 869306005484 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 869306005485 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 869306005486 S-adenosylmethionine binding site [chemical binding]; other site 869306005487 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 869306005488 dimer interface [polypeptide binding]; other site 869306005489 active site 869306005490 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 869306005491 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 869306005492 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 869306005493 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 869306005494 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 869306005495 acylphosphatase; Provisional; Region: PRK14434 869306005496 OxaA-like protein precursor; Provisional; Region: PRK02463 869306005497 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 869306005498 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 869306005499 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 869306005500 FeS/SAM binding site; other site 869306005501 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 869306005502 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 869306005503 active site 869306005504 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869306005505 substrate binding site [chemical binding]; other site 869306005506 catalytic residues [active] 869306005507 dimer interface [polypeptide binding]; other site 869306005508 pur operon repressor; Provisional; Region: PRK09213 869306005509 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 869306005510 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306005511 active site 869306005512 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 869306005513 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 869306005514 generic binding surface II; other site 869306005515 generic binding surface I; other site 869306005516 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869306005517 Zn2+ binding site [ion binding]; other site 869306005518 Mg2+ binding site [ion binding]; other site 869306005519 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 869306005520 RmuC family; Region: RmuC; pfam02646 869306005521 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 869306005522 Thiamine pyrophosphokinase; Region: TPK; cd07995 869306005523 active site 869306005524 dimerization interface [polypeptide binding]; other site 869306005525 thiamine binding site [chemical binding]; other site 869306005526 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 869306005527 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 869306005528 substrate binding site [chemical binding]; other site 869306005529 hexamer interface [polypeptide binding]; other site 869306005530 metal binding site [ion binding]; metal-binding site 869306005531 GTPase RsgA; Reviewed; Region: PRK00098 869306005532 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 869306005533 RNA binding site [nucleotide binding]; other site 869306005534 homodimer interface [polypeptide binding]; other site 869306005535 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 869306005536 GTPase/Zn-binding domain interface [polypeptide binding]; other site 869306005537 GTP/Mg2+ binding site [chemical binding]; other site 869306005538 G4 box; other site 869306005539 G5 box; other site 869306005540 G1 box; other site 869306005541 Switch I region; other site 869306005542 G2 box; other site 869306005543 G3 box; other site 869306005544 Switch II region; other site 869306005545 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 869306005546 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 869306005547 S-adenosylmethionine binding site [chemical binding]; other site 869306005548 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869306005549 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869306005550 Walker A/P-loop; other site 869306005551 ATP binding site [chemical binding]; other site 869306005552 Q-loop/lid; other site 869306005553 ABC transporter signature motif; other site 869306005554 Walker B; other site 869306005555 D-loop; other site 869306005556 H-loop/switch region; other site 869306005557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869306005558 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869306005559 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 869306005560 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306005561 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 869306005562 non-specific DNA binding site [nucleotide binding]; other site 869306005563 salt bridge; other site 869306005564 sequence-specific DNA binding site [nucleotide binding]; other site 869306005565 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 869306005566 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 869306005567 putative active site [active] 869306005568 putative metal binding site [ion binding]; other site 869306005569 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 869306005570 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 869306005571 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 869306005572 active site 869306005573 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 869306005574 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 869306005575 aminotransferase AlaT; Validated; Region: PRK09265 869306005576 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 869306005577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306005578 homodimer interface [polypeptide binding]; other site 869306005579 catalytic residue [active] 869306005580 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 869306005581 Ligand Binding Site [chemical binding]; other site 869306005582 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 869306005583 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869306005584 active site 869306005585 motif I; other site 869306005586 motif II; other site 869306005587 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 869306005588 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 869306005589 putative nucleotide binding site [chemical binding]; other site 869306005590 putative metal binding site [ion binding]; other site 869306005591 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 869306005592 active site 869306005593 homotetramer interface [polypeptide binding]; other site 869306005594 homodimer interface [polypeptide binding]; other site 869306005595 catabolite control protein A; Region: ccpA; TIGR01481 869306005596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869306005597 DNA binding site [nucleotide binding] 869306005598 domain linker motif; other site 869306005599 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 869306005600 dimerization interface [polypeptide binding]; other site 869306005601 effector binding site; other site 869306005602 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 869306005603 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 869306005604 active site 869306005605 phosphorylation site [posttranslational modification] 869306005606 intermolecular recognition site; other site 869306005607 dimerization interface [polypeptide binding]; other site 869306005608 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 869306005609 DNA binding residues [nucleotide binding] 869306005610 dimerization interface [polypeptide binding]; other site 869306005611 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 869306005612 Histidine kinase; Region: HisKA_3; pfam07730 869306005613 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 869306005614 ATP binding site [chemical binding]; other site 869306005615 Mg2+ binding site [ion binding]; other site 869306005616 G-X-G motif; other site 869306005617 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 869306005618 ABC-2 type transporter; Region: ABC2_membrane; cl17235 869306005619 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 869306005620 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869306005621 Walker A/P-loop; other site 869306005622 ATP binding site [chemical binding]; other site 869306005623 Q-loop/lid; other site 869306005624 ABC transporter signature motif; other site 869306005625 Walker B; other site 869306005626 D-loop; other site 869306005627 H-loop/switch region; other site 869306005628 manually curated to include N-terminal signal sequence 869306005629 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 869306005630 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 869306005631 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 869306005632 putative homodimer interface [polypeptide binding]; other site 869306005633 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 869306005634 heterodimer interface [polypeptide binding]; other site 869306005635 homodimer interface [polypeptide binding]; other site 869306005636 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 869306005637 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 869306005638 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 869306005639 Transglycosylase; Region: Transgly; pfam00912 869306005640 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869306005641 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869306005642 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869306005643 active site 869306005644 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 869306005645 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 869306005646 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 869306005647 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 869306005648 FtsX-like permease family; Region: FtsX; pfam02687 869306005650 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 869306005651 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 869306005652 dimerization interface [polypeptide binding]; other site 869306005653 active site 869306005654 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 869306005655 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 869306005657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 869306005658 Walker A/P-loop; other site 869306005659 ATP binding site [chemical binding]; other site 869306005660 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869306005661 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869306005662 DNA-binding site [nucleotide binding]; DNA binding site 869306005663 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 869306005664 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869306005665 beta-galactosidase; Region: BGL; TIGR03356 869306005666 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869306005667 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869306005668 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 869306005669 active site 869306005670 P-loop; other site 869306005671 phosphorylation site [posttranslational modification] 869306005672 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 869306005673 methionine cluster; other site 869306005674 active site 869306005675 phosphorylation site [posttranslational modification] 869306005676 metal binding site [ion binding]; metal-binding site 869306005677 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 869306005678 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 869306005679 putative catalytic cysteine [active] 869306005680 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 869306005681 putative active site [active] 869306005682 metal binding site [ion binding]; metal-binding site 869306005683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 869306005684 MORN repeat; Region: MORN; cl14787 869306005685 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 869306005686 Low molecular weight phosphatase family; Region: LMWPc; cd00115 869306005687 active site 869306005688 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 869306005689 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 869306005690 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 869306005691 TPP-binding site [chemical binding]; other site 869306005692 dimer interface [polypeptide binding]; other site 869306005693 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 869306005694 PYR/PP interface [polypeptide binding]; other site 869306005695 dimer interface [polypeptide binding]; other site 869306005696 TPP binding site [chemical binding]; other site 869306005697 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869306005698 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 869306005699 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 869306005700 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869306005701 PRD domain; Region: PRD; pfam00874 869306005702 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 869306005703 active site 869306005704 P-loop; other site 869306005705 phosphorylation site [posttranslational modification] 869306005706 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 869306005707 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 869306005708 intersubunit interface [polypeptide binding]; other site 869306005709 active site 869306005710 Zn2+ binding site [ion binding]; other site 869306005711 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 869306005712 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 869306005713 AP (apurinic/apyrimidinic) site pocket; other site 869306005714 DNA interaction; other site 869306005715 Metal-binding active site; metal-binding site 869306005716 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 869306005717 active site 869306005718 dimer interface [polypeptide binding]; other site 869306005719 magnesium binding site [ion binding]; other site 869306005720 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 869306005721 active site 869306005722 phosphorylation site [posttranslational modification] 869306005723 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 869306005724 active site 869306005725 P-loop; other site 869306005726 phosphorylation site [posttranslational modification] 869306005727 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 869306005728 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 869306005729 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 869306005730 G-X-X-G motif; other site 869306005731 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 869306005732 RxxxH motif; other site 869306005733 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 869306005734 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 869306005735 ribonuclease P; Reviewed; Region: rnpA; PRK00499 869306005736 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 869306005737 propionate/acetate kinase; Provisional; Region: PRK12379 869306005738 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 869306005739 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 869306005740 S-adenosylmethionine binding site [chemical binding]; other site 869306005742 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 869306005743 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 869306005744 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 869306005745 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 869306005746 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 869306005747 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 869306005748 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 869306005749 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 869306005750 Walker A motif; other site 869306005751 ATP binding site [chemical binding]; other site 869306005752 Walker B motif; other site 869306005753 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 869306005754 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 869306005755 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869306005756 catalytic Zn binding site [ion binding]; other site 869306005757 structural Zn binding site [ion binding]; other site 869306005758 NAD(P) binding site [chemical binding]; other site 869306005759 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 869306005760 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 869306005761 active site 869306005762 dimer interface [polypeptide binding]; other site 869306005763 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 869306005764 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 869306005765 catalytic triad [active] 869306005766 catalytic triad [active] 869306005767 oxyanion hole [active] 869306005768 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 869306005769 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 869306005770 Predicted integral membrane protein [Function unknown]; Region: COG5523 869306005772 Predicted membrane protein [Function unknown]; Region: COG3759 869306005773 Transcriptional regulators [Transcription]; Region: MarR; COG1846 869306005774 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 869306005775 putative DNA binding site [nucleotide binding]; other site 869306005776 putative Zn2+ binding site [ion binding]; other site 869306005777 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 869306005778 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 869306005779 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 869306005780 motif II; other site 869306005781 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 869306005782 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 869306005783 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 869306005784 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 869306005785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306005786 catalytic residue [active] 869306005787 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 869306005788 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 869306005789 active site 869306005790 catalytic motif [active] 869306005791 Zn binding site [ion binding]; other site 869306005792 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 869306005793 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 869306005794 active site 869306005795 HIGH motif; other site 869306005796 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 869306005797 active site 869306005798 KMSKS motif; other site 869306005799 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 869306005800 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 869306005801 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 869306005802 active site 869306005803 dimer interface [polypeptide binding]; other site 869306005804 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 869306005805 dimer interface [polypeptide binding]; other site 869306005806 active site 869306005807 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 869306005808 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 869306005809 catalytic triad [active] 869306005810 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869306005811 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306005812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306005813 Walker A/P-loop; other site 869306005814 ATP binding site [chemical binding]; other site 869306005815 Q-loop/lid; other site 869306005816 ABC transporter signature motif; other site 869306005817 Walker B; other site 869306005818 D-loop; other site 869306005819 H-loop/switch region; other site 869306005821 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869306005822 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869306005823 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306005824 Walker A/P-loop; other site 869306005825 ATP binding site [chemical binding]; other site 869306005826 Q-loop/lid; other site 869306005827 ABC transporter signature motif; other site 869306005828 Walker B; other site 869306005829 D-loop; other site 869306005830 H-loop/switch region; other site 869306005831 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 869306005832 MutS domain I; Region: MutS_I; pfam01624 869306005833 MutS domain II; Region: MutS_II; pfam05188 869306005834 MutS domain III; Region: MutS_III; pfam05192 869306005835 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 869306005836 Walker A/P-loop; other site 869306005837 ATP binding site [chemical binding]; other site 869306005838 Q-loop/lid; other site 869306005839 ABC transporter signature motif; other site 869306005840 Walker B; other site 869306005841 D-loop; other site 869306005842 H-loop/switch region; other site 869306005843 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869306005844 arginine repressor; Region: argR_whole; TIGR01529 869306005845 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869306005846 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 869306005847 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 869306005848 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 869306005849 active site 869306005850 HIGH motif; other site 869306005851 KMSK motif region; other site 869306005852 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 869306005853 tRNA binding surface [nucleotide binding]; other site 869306005854 anticodon binding site; other site 869306005856 Uncharacterized conserved protein [Function unknown]; Region: COG3542 869306005857 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306005858 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 869306005859 active site 869306005860 phosphorylation site [posttranslational modification] 869306005861 intermolecular recognition site; other site 869306005862 dimerization interface [polypeptide binding]; other site 869306005863 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 869306005864 DNA binding site [nucleotide binding] 869306005865 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 869306005866 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 869306005867 dimer interface [polypeptide binding]; other site 869306005868 phosphorylation site [posttranslational modification] 869306005869 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 869306005870 ATP binding site [chemical binding]; other site 869306005871 G-X-G motif; other site 869306005872 PBP superfamily domain; Region: PBP_like_2; cl17296 869306005873 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 869306005874 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 869306005875 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 869306005876 dimer interface [polypeptide binding]; other site 869306005877 conserved gate region; other site 869306005878 putative PBP binding loops; other site 869306005879 ABC-ATPase subunit interface; other site 869306005880 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 869306005881 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 869306005882 dimer interface [polypeptide binding]; other site 869306005883 conserved gate region; other site 869306005884 putative PBP binding loops; other site 869306005885 ABC-ATPase subunit interface; other site 869306005886 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 869306005887 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869306005888 Walker A/P-loop; other site 869306005889 ATP binding site [chemical binding]; other site 869306005890 Q-loop/lid; other site 869306005891 ABC transporter signature motif; other site 869306005892 Walker B; other site 869306005893 D-loop; other site 869306005894 H-loop/switch region; other site 869306005895 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 869306005896 PhoU domain; Region: PhoU; pfam01895 869306005897 PhoU domain; Region: PhoU; pfam01895 869306005899 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869306005900 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 869306005901 non-specific DNA binding site [nucleotide binding]; other site 869306005902 salt bridge; other site 869306005903 sequence-specific DNA binding site [nucleotide binding]; other site 869306005904 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 869306005905 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 869306005906 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 869306005907 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 869306005908 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 869306005909 active site 869306005910 tetramer interface; other site 869306005911 Rhomboid family; Region: Rhomboid; pfam01694 869306005912 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 869306005913 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 869306005914 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 869306005915 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 869306005916 metal binding site [ion binding]; metal-binding site 869306005917 putative dimer interface [polypeptide binding]; other site 869306005918 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 869306005919 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 869306005920 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 869306005921 trimer interface [polypeptide binding]; other site 869306005922 active site 869306005923 substrate binding site [chemical binding]; other site 869306005924 CoA binding site [chemical binding]; other site 869306005925 EamA-like transporter family; Region: EamA; pfam00892 869306005926 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 869306005927 Transglycosylase; Region: Transgly; pfam00912 869306005928 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869306005929 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 869306005930 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 869306005931 active site 869306005932 HIGH motif; other site 869306005933 dimer interface [polypeptide binding]; other site 869306005934 KMSKS motif; other site 869306005935 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 869306005936 RNA binding surface [nucleotide binding]; other site 869306005937 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 869306005938 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869306005939 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 869306005940 motif II; other site 869306005941 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 869306005942 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 869306005943 S-adenosylmethionine binding site [chemical binding]; other site 869306005944 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 869306005945 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 869306005946 4-alpha-glucanotransferase; Provisional; Region: PRK14508 869306005947 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 869306005948 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869306005949 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 869306005950 dimer interface [polypeptide binding]; other site 869306005951 conserved gate region; other site 869306005952 putative PBP binding loops; other site 869306005953 ABC-ATPase subunit interface; other site 869306005954 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869306005955 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 869306005956 dimer interface [polypeptide binding]; other site 869306005957 conserved gate region; other site 869306005958 putative PBP binding loops; other site 869306005959 ABC-ATPase subunit interface; other site 869306005960 Predicted integral membrane protein [Function unknown]; Region: COG5521 869306005961 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869306005962 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869306005963 DNA binding site [nucleotide binding] 869306005964 domain linker motif; other site 869306005965 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 869306005966 putative dimerization interface [polypeptide binding]; other site 869306005967 putative ligand binding site [chemical binding]; other site 869306005968 Uncharacterized conserved protein [Function unknown]; Region: COG1284 869306005969 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869306005970 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869306005971 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 869306005972 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 869306005973 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 869306005974 dimer interface [polypeptide binding]; other site 869306005975 anticodon binding site; other site 869306005976 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 869306005977 homodimer interface [polypeptide binding]; other site 869306005978 motif 1; other site 869306005979 active site 869306005980 motif 2; other site 869306005981 GAD domain; Region: GAD; pfam02938 869306005982 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 869306005983 motif 3; other site 869306005984 CAAX protease self-immunity; Region: Abi; pfam02517 869306005985 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 869306005986 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 869306005987 non-specific DNA binding site [nucleotide binding]; other site 869306005988 salt bridge; other site 869306005989 sequence-specific DNA binding site [nucleotide binding]; other site 869306005990 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 869306005991 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 869306005992 dimer interface [polypeptide binding]; other site 869306005993 motif 1; other site 869306005994 active site 869306005995 motif 2; other site 869306005996 motif 3; other site 869306005997 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 869306005998 anticodon binding site; other site 869306005999 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 869306006000 non-specific DNA binding site [nucleotide binding]; other site 869306006001 salt bridge; other site 869306006002 sequence-specific DNA binding site [nucleotide binding]; other site 869306006003 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 869306006004 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 869306006005 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 869306006006 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 869306006007 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 869306006008 PYR/PP interface [polypeptide binding]; other site 869306006009 dimer interface [polypeptide binding]; other site 869306006010 TPP binding site [chemical binding]; other site 869306006011 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869306006012 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 869306006013 TPP-binding site [chemical binding]; other site 869306006014 dimer interface [polypeptide binding]; other site 869306006015 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 869306006016 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 869306006017 active site 869306006018 P-loop; other site 869306006019 phosphorylation site [posttranslational modification] 869306006020 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869306006021 PRD domain; Region: PRD; pfam00874 869306006022 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 869306006023 active site 869306006024 P-loop; other site 869306006025 phosphorylation site [posttranslational modification] 869306006026 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 869306006027 active site 869306006028 phosphorylation site [posttranslational modification] 869306006029 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 869306006030 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 869306006031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 869306006032 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 869306006033 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 869306006034 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 869306006035 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 869306006036 putative active site [active] 869306006037 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869306006038 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869306006039 nucleotide binding site [chemical binding]; other site 869306006040 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 869306006041 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 869306006042 active site 869306006043 metal binding site [ion binding]; metal-binding site 869306006044 homodimer interface [polypeptide binding]; other site 869306006045 catalytic site [active] 869306006046 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 869306006047 Uncharacterized conserved protein [Function unknown]; Region: COG3538 869306006048 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 869306006049 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 869306006050 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 869306006051 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 869306006052 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 869306006053 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869306006054 arginine deiminase; Provisional; Region: PRK01388 869306006055 ornithine carbamoyltransferase; Validated; Region: PRK02102 869306006056 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 869306006057 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 869306006058 carbamate kinase; Reviewed; Region: PRK12686 869306006059 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 869306006060 putative substrate binding site [chemical binding]; other site 869306006061 nucleotide binding site [chemical binding]; other site 869306006062 nucleotide binding site [chemical binding]; other site 869306006063 homodimer interface [polypeptide binding]; other site 869306006064 Predicted membrane protein [Function unknown]; Region: COG1288 869306006065 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 869306006066 hypothetical protein; Provisional; Region: PRK07205 869306006067 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 869306006068 active site 869306006069 metal binding site [ion binding]; metal-binding site 869306006071 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 869306006072 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 869306006073 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 869306006074 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 869306006075 dimer interface [polypeptide binding]; other site 869306006076 active site 869306006077 metal binding site [ion binding]; metal-binding site 869306006078 L-fucose isomerase; Provisional; Region: fucI; PRK10991 869306006079 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 869306006080 hexamer (dimer of trimers) interface [polypeptide binding]; other site 869306006081 trimer interface [polypeptide binding]; other site 869306006082 substrate binding site [chemical binding]; other site 869306006083 Mn binding site [ion binding]; other site 869306006084 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 869306006085 intersubunit interface [polypeptide binding]; other site 869306006086 active site 869306006087 Zn2+ binding site [ion binding]; other site 869306006088 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 869306006089 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 869306006090 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 869306006091 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 869306006092 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869306006093 Melibiase; Region: Melibiase; pfam02065 869306006094 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869306006095 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 869306006096 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 869306006098 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869306006099 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 869306006100 dimer interface [polypeptide binding]; other site 869306006101 conserved gate region; other site 869306006102 putative PBP binding loops; other site 869306006103 ABC-ATPase subunit interface; other site 869306006104 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869306006105 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869306006106 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 869306006107 N- and C-terminal domain interface [polypeptide binding]; other site 869306006108 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 869306006109 active site 869306006110 putative catalytic site [active] 869306006111 metal binding site [ion binding]; metal-binding site 869306006112 ATP binding site [chemical binding]; other site 869306006113 carbohydrate binding site [chemical binding]; other site 869306006114 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869306006115 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 869306006116 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869306006117 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869306006118 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 869306006119 metal binding site [ion binding]; metal-binding site 869306006120 YodA lipocalin-like domain; Region: YodA; pfam09223 869306006121 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 869306006122 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 869306006123 ABC-ATPase subunit interface; other site 869306006124 dimer interface [polypeptide binding]; other site 869306006125 putative PBP binding regions; other site 869306006126 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869306006127 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 869306006128 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 869306006129 putative DNA binding site [nucleotide binding]; other site 869306006130 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 869306006131 DltD N-terminal region; Region: DltD_N; pfam04915 869306006132 DltD central region; Region: DltD_M; pfam04918 869306006133 DltD C-terminal region; Region: DltD_C; pfam04914 869306006134 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 869306006135 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 869306006136 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 869306006137 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 869306006138 acyl-activating enzyme (AAE) consensus motif; other site 869306006139 AMP binding site [chemical binding]; other site 869306006140 H+ Antiporter protein; Region: 2A0121; TIGR00900 869306006141 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 869306006142 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 869306006143 putative active site [active] 869306006144 putative NTP binding site [chemical binding]; other site 869306006145 putative nucleic acid binding site [nucleotide binding]; other site 869306006146 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 869306006147 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 869306006148 amphipathic channel; other site 869306006149 Asn-Pro-Ala signature motifs; other site 869306006150 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 869306006151 glycerol kinase; Provisional; Region: glpK; PRK00047 869306006152 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 869306006153 N- and C-terminal domain interface [polypeptide binding]; other site 869306006154 active site 869306006155 MgATP binding site [chemical binding]; other site 869306006156 catalytic site [active] 869306006157 metal binding site [ion binding]; metal-binding site 869306006158 glycerol binding site [chemical binding]; other site 869306006159 homotetramer interface [polypeptide binding]; other site 869306006160 homodimer interface [polypeptide binding]; other site 869306006161 FBP binding site [chemical binding]; other site 869306006162 protein IIAGlc interface [polypeptide binding]; other site 869306006163 Mga helix-turn-helix domain; Region: Mga; pfam05043 869306006164 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 869306006165 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 869306006166 dimerization interface [polypeptide binding]; other site 869306006167 domain crossover interface; other site 869306006168 redox-dependent activation switch; other site 869306006169 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 869306006170 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 869306006171 FMN binding site [chemical binding]; other site 869306006172 active site 869306006173 catalytic residues [active] 869306006174 substrate binding site [chemical binding]; other site 869306006175 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869306006176 RICH domain; Region: RICH; pfam05062 869306006177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 869306006178 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869306006179 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 869306006180 dimerization interface [polypeptide binding]; other site 869306006181 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 869306006182 dimer interface [polypeptide binding]; other site 869306006183 phosphorylation site [posttranslational modification] 869306006184 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 869306006185 ATP binding site [chemical binding]; other site 869306006186 Mg2+ binding site [ion binding]; other site 869306006187 G-X-G motif; other site 869306006188 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869306006189 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 869306006190 active site 869306006191 phosphorylation site [posttranslational modification] 869306006192 intermolecular recognition site; other site 869306006193 dimerization interface [polypeptide binding]; other site 869306006194 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 869306006195 DNA binding site [nucleotide binding] 869306006196 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 869306006197 Clp amino terminal domain; Region: Clp_N; pfam02861 869306006198 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 869306006199 Walker A motif; other site 869306006200 ATP binding site [chemical binding]; other site 869306006201 Walker B motif; other site 869306006202 arginine finger; other site 869306006203 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 869306006204 Walker A motif; other site 869306006205 ATP binding site [chemical binding]; other site 869306006206 Walker B motif; other site 869306006207 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869306006208 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 869306006209 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 869306006210 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 869306006211 Walker A/P-loop; other site 869306006212 ATP binding site [chemical binding]; other site 869306006213 Q-loop/lid; other site 869306006214 ABC transporter signature motif; other site 869306006215 Walker B; other site 869306006216 D-loop; other site 869306006217 H-loop/switch region; other site 869306006218 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 869306006219 NMT1/THI5 like; Region: NMT1; pfam09084 869306006220 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 869306006221 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 869306006222 Uncharacterized conserved protein [Function unknown]; Region: COG0011 869306006223 Surface antigen [General function prediction only]; Region: COG3942 869306006224 CHAP domain; Region: CHAP; pfam05257 869306006225 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869306006226 Bacterial SH3 domain; Region: SH3_5; pfam08460 869306006227 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869306006228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 869306006229 replicative DNA helicase; Provisional; Region: PRK05748 869306006230 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 869306006231 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 869306006232 Walker A motif; other site 869306006233 ATP binding site [chemical binding]; other site 869306006234 Walker B motif; other site 869306006235 DNA binding loops [nucleotide binding] 869306006236 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 869306006237 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 869306006238 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 869306006239 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 869306006240 DHH family; Region: DHH; pfam01368 869306006241 DHHA1 domain; Region: DHHA1; pfam02272 869306006242 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 869306006243 30S subunit binding site; other site 869306006244 comF family protein; Region: comF; TIGR00201 869306006245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869306006246 active site 869306006247 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 869306006248 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 869306006249 ATP binding site [chemical binding]; other site 869306006250 putative Mg++ binding site [ion binding]; other site 869306006251 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 869306006252 nucleotide binding region [chemical binding]; other site 869306006253 ATP-binding site [chemical binding]; other site 869306006254 Uncharacterized conserved protein [Function unknown]; Region: COG1739 869306006255 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 869306006256 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 869306006257 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 869306006258 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 869306006259 dimer interface [polypeptide binding]; other site 869306006260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869306006261 catalytic residue [active] 869306006265 elongation factor Ts; Provisional; Region: tsf; PRK09377 869306006266 UBA/TS-N domain; Region: UBA; pfam00627 869306006267 Elongation factor TS; Region: EF_TS; pfam00889 869306006268 Elongation factor TS; Region: EF_TS; pfam00889 869306006269 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 869306006270 rRNA interaction site [nucleotide binding]; other site 869306006271 S8 interaction site; other site 869306006272 putative laminin-1 binding site; other site 869306006273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 869306006274 Septum formation initiator; Region: DivIC; cl17659 869306006275 Surface antigen [General function prediction only]; Region: COG3942 869306006276 CHAP domain; Region: CHAP; pfam05257 869306006277 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 869306006278 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 869306006279 rod shape-determining protein MreC; Region: MreC; pfam04085 869306006280 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869306006281 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 869306006282 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869306006283 Walker A/P-loop; other site 869306006284 ATP binding site [chemical binding]; other site 869306006285 Q-loop/lid; other site 869306006286 ABC transporter signature motif; other site 869306006287 Walker B; other site 869306006288 D-loop; other site 869306006289 H-loop/switch region; other site 869306006290 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 869306006291 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869306006292 Walker A/P-loop; other site 869306006293 ATP binding site [chemical binding]; other site 869306006294 Q-loop/lid; other site 869306006295 ABC transporter signature motif; other site 869306006296 Walker B; other site 869306006297 D-loop; other site 869306006298 H-loop/switch region; other site 869306006299 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 869306006300 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 869306006301 Helix-turn-helix domain; Region: HTH_25; pfam13413 869306006302 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 869306006303 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 869306006304 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 869306006305 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 869306006306 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 869306006307 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 869306006308 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 869306006309 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 869306006310 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 869306006311 Walker A/P-loop; other site 869306006312 ATP binding site [chemical binding]; other site 869306006313 Q-loop/lid; other site 869306006314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869306006315 ABC transporter signature motif; other site 869306006316 Walker B; other site 869306006317 D-loop; other site 869306006318 H-loop/switch region; other site 869306006319 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 869306006320 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 869306006321 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 869306006322 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 869306006323 active site 869306006324 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 869306006325 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 869306006326 active site 869306006327 HIGH motif; other site 869306006328 dimer interface [polypeptide binding]; other site 869306006329 KMSKS motif; other site 869306006330 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 869306006331 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306006332 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306006333 ABC transporter; Region: ABC_tran_2; pfam12848 869306006334 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869306006335 Predicted membrane protein [Function unknown]; Region: COG4485 869306006336 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 869306006337 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 869306006338 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869306006339 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869306006340 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869306006341 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 869306006342 active site 869306006343 phosphorylation site [posttranslational modification] 869306006344 intermolecular recognition site; other site 869306006345 dimerization interface [polypeptide binding]; other site 869306006346 LytTr DNA-binding domain; Region: LytTR; pfam04397 869306006347 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869306006348 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 869306006349 COMC family; Region: ComC; pfam03047 869306006350 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 869306006351 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 869306006352 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 869306006353 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 869306006354 protein binding site [polypeptide binding]; other site 869306006355 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 869306006356 ParB-like nuclease domain; Region: ParBc; pfam02195 869306006357 KorB domain; Region: KorB; pfam08535