-- dump date 20140620_085054 -- class Genbank::misc_feature -- table misc_feature_note -- id note 869304000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 869304000002 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 869304000003 Walker A motif; other site 869304000004 ATP binding site [chemical binding]; other site 869304000005 Walker B motif; other site 869304000006 arginine finger; other site 869304000007 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 869304000008 DnaA box-binding interface [nucleotide binding]; other site 869304000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 869304000010 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 869304000011 putative DNA binding surface [nucleotide binding]; other site 869304000012 dimer interface [polypeptide binding]; other site 869304000013 beta-clamp/clamp loader binding surface; other site 869304000014 beta-clamp/translesion DNA polymerase binding surface; other site 869304000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 869304000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 869304000017 YchF GTPase; Region: YchF; cd01900 869304000018 G1 box; other site 869304000019 GTP/Mg2+ binding site [chemical binding]; other site 869304000020 Switch I region; other site 869304000021 G2 box; other site 869304000022 Switch II region; other site 869304000023 G3 box; other site 869304000024 G4 box; other site 869304000025 G5 box; other site 869304000026 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 869304000027 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 869304000028 putative active site [active] 869304000029 catalytic residue [active] 869304000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 869304000031 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 869304000032 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 869304000033 ATP binding site [chemical binding]; other site 869304000034 putative Mg++ binding site [ion binding]; other site 869304000035 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 869304000036 nucleotide binding region [chemical binding]; other site 869304000037 ATP-binding site [chemical binding]; other site 869304000038 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 869304000039 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 869304000040 RNA binding surface [nucleotide binding]; other site 869304000041 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 869304000042 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 869304000043 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 869304000044 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 869304000045 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 869304000046 Ligand Binding Site [chemical binding]; other site 869304000047 TilS substrate C-terminal domain; Region: TilS_C; smart00977 869304000048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304000049 active site 869304000050 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 869304000051 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 869304000052 Walker A motif; other site 869304000053 ATP binding site [chemical binding]; other site 869304000054 Walker B motif; other site 869304000055 arginine finger; other site 869304000056 Peptidase family M41; Region: Peptidase_M41; pfam01434 869304000057 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 869304000059 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 869304000060 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 869304000061 GDP-binding site [chemical binding]; other site 869304000062 ACT binding site; other site 869304000063 IMP binding site; other site 869304000064 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 869304000065 active site 869304000066 catalytic residues [active] 869304000067 DNA binding site [nucleotide binding] 869304000068 Int/Topo IB signature motif; other site 869304000069 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 869304000070 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 869304000071 active site 869304000072 catalytic site [active] 869304000073 substrate binding site [chemical binding]; other site 869304000074 Domain of unknown function (DUF955); Region: DUF955; pfam06114 869304000075 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304000076 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 869304000077 non-specific DNA binding site [nucleotide binding]; other site 869304000078 salt bridge; other site 869304000079 sequence-specific DNA binding site [nucleotide binding]; other site 869304000080 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 869304000081 non-specific DNA binding site [nucleotide binding]; other site 869304000082 salt bridge; other site 869304000083 sequence-specific DNA binding site [nucleotide binding]; other site 869304000084 Prophage antirepressor [Transcription]; Region: COG3617 869304000085 BRO family, N-terminal domain; Region: Bro-N; smart01040 869304000086 ORF6C domain; Region: ORF6C; pfam10552 869304000087 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 869304000088 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 869304000089 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 869304000090 Walker A motif; other site 869304000091 ATP binding site [chemical binding]; other site 869304000092 Walker B motif; other site 869304000093 arginine finger; other site 869304000094 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 869304000095 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 869304000096 Int/Topo IB signature motif; other site 869304000097 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 869304000098 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 869304000099 ATP binding site [chemical binding]; other site 869304000100 putative Mg++ binding site [ion binding]; other site 869304000101 Phage-related protein [Function unknown]; Region: COG4695; cl01923 869304000102 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 869304000103 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 869304000104 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 869304000105 Phage capsid family; Region: Phage_capsid; pfam05065 869304000106 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 869304000107 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 869304000108 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 869304000109 dimer interface [polypeptide binding]; other site 869304000110 Phage-related minor tail protein [Function unknown]; Region: COG5280 869304000111 Phage-related protein [Function unknown]; Region: COG5412 869304000112 membrane protein P6; Region: PHA01399 869304000113 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 869304000114 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 869304000115 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 869304000116 toxin secretion/phage lysis holin; Region: holin_tox_secr; TIGR01593 869304000117 Phage holin protein (Holin_LLH); Region: Holin_LLH; pfam09682 869304000118 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304000119 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 869304000120 amidase catalytic site [active] 869304000121 Zn binding residues [ion binding]; other site 869304000122 substrate binding site [chemical binding]; other site 869304000123 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000124 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 869304000125 nucleoside/Zn binding site; other site 869304000126 dimer interface [polypeptide binding]; other site 869304000127 catalytic motif [active] 869304000128 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 869304000129 trimer interface [polypeptide binding]; other site 869304000130 active site 869304000131 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 869304000132 catalytic core [active] 869304000133 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 869304000134 DNA repair protein RadA; Provisional; Region: PRK11823 869304000135 Walker A motif; other site 869304000136 ATP binding site [chemical binding]; other site 869304000137 Walker B motif; other site 869304000138 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 869304000139 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 869304000140 active site clefts [active] 869304000141 zinc binding site [ion binding]; other site 869304000142 dimer interface [polypeptide binding]; other site 869304000143 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 869304000144 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 869304000145 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 869304000146 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304000147 active site 869304000149 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 869304000150 DNA polymerase I; Provisional; Region: PRK05755 869304000151 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 869304000152 active site 869304000153 metal binding site 1 [ion binding]; metal-binding site 869304000154 putative 5' ssDNA interaction site; other site 869304000155 metal binding site 3; metal-binding site 869304000156 metal binding site 2 [ion binding]; metal-binding site 869304000157 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 869304000158 putative DNA binding site [nucleotide binding]; other site 869304000159 putative metal binding site [ion binding]; other site 869304000160 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 869304000161 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 869304000162 active site 869304000163 DNA binding site [nucleotide binding] 869304000164 catalytic site [active] 869304000165 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 869304000167 aromatic amino acid aminotransferase; Validated; Region: PRK07309 869304000168 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 869304000169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304000170 homodimer interface [polypeptide binding]; other site 869304000171 catalytic residue [active] 869304000172 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 869304000173 Recombination protein O N terminal; Region: RecO_N; pfam11967 869304000174 Recombination protein O C terminal; Region: RecO_C; pfam02565 869304000175 putative phosphate acyltransferase; Provisional; Region: PRK05331 869304000178 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 869304000179 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 869304000180 putative active site [active] 869304000181 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304000182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304000183 Walker A/P-loop; other site 869304000184 ATP binding site [chemical binding]; other site 869304000185 Q-loop/lid; other site 869304000186 ABC transporter signature motif; other site 869304000187 Walker B; other site 869304000188 D-loop; other site 869304000189 H-loop/switch region; other site 869304000190 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869304000191 HlyD family secretion protein; Region: HlyD_3; pfam13437 869304000192 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 869304000193 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 869304000194 ATP binding site [chemical binding]; other site 869304000195 active site 869304000196 substrate binding site [chemical binding]; other site 869304000197 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 869304000198 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 869304000199 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 869304000200 dimerization interface [polypeptide binding]; other site 869304000201 ATP binding site [chemical binding]; other site 869304000202 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 869304000203 dimerization interface [polypeptide binding]; other site 869304000204 ATP binding site [chemical binding]; other site 869304000205 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 869304000206 putative active site [active] 869304000207 catalytic triad [active] 869304000208 amidophosphoribosyltransferase; Provisional; Region: PRK07272 869304000209 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 869304000210 active site 869304000211 tetramer interface [polypeptide binding]; other site 869304000212 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304000213 active site 869304000214 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 869304000215 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 869304000216 dimerization interface [polypeptide binding]; other site 869304000217 putative ATP binding site [chemical binding]; other site 869304000218 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 869304000219 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 869304000220 active site 869304000221 substrate binding site [chemical binding]; other site 869304000222 cosubstrate binding site; other site 869304000223 catalytic site [active] 869304000224 VanZ like family; Region: VanZ; pfam04892 869304000225 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 869304000226 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 869304000227 purine monophosphate binding site [chemical binding]; other site 869304000228 dimer interface [polypeptide binding]; other site 869304000229 putative catalytic residues [active] 869304000230 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 869304000231 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 869304000232 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 869304000233 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 869304000234 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 869304000235 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 869304000236 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 869304000237 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 869304000238 ATP-grasp domain; Region: ATP-grasp; pfam02222 869304000239 adenylosuccinate lyase; Provisional; Region: PRK07492 869304000240 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 869304000241 tetramer interface [polypeptide binding]; other site 869304000242 active site 869304000243 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869304000244 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 869304000245 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 869304000246 active site 869304000247 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 869304000248 active site 869304000249 G5 domain; Region: G5; pfam07501 869304000250 G5 domain; Region: G5; pfam07501 869304000251 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 869304000252 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869304000253 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304000254 DNA-binding site [nucleotide binding]; DNA binding site 869304000255 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 869304000256 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 869304000257 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 869304000258 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 869304000259 active site 869304000260 phosphorylation site [posttranslational modification] 869304000261 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 869304000262 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869304000263 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 869304000264 active pocket/dimerization site; other site 869304000265 active site 869304000266 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 869304000267 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 869304000268 dimer interface [polypeptide binding]; other site 869304000269 active site 869304000270 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 869304000271 putative active site [active] 869304000272 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 869304000273 active site 869304000274 catalytic residues [active] 869304000275 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 869304000276 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 869304000277 putative metal binding site [ion binding]; other site 869304000278 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 869304000279 active site 869304000280 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 869304000281 putative homodimer interface [polypeptide binding]; other site 869304000282 putative homotetramer interface [polypeptide binding]; other site 869304000283 putative allosteric switch controlling residues; other site 869304000284 putative metal binding site [ion binding]; other site 869304000285 putative homodimer-homodimer interface [polypeptide binding]; other site 869304000286 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 869304000287 active site residue [active] 869304000288 Similar to C-terminus of a protein from other streptococci 869304000289 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 869304000290 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 869304000291 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 869304000292 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 869304000293 TrkA-N domain; Region: TrkA_N; pfam02254 869304000295 Fibronectin-binding repeat; Region: SSURE; pfam11966 869304000296 Fibronectin-binding repeat; Region: SSURE; pfam11966 869304000297 Fibronectin-binding repeat; Region: SSURE; pfam11966 869304000298 Fibronectin-binding repeat; Region: SSURE; pfam11966 869304000299 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304000300 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 869304000301 active site 869304000302 phosphorylation site [posttranslational modification] 869304000303 intermolecular recognition site; other site 869304000304 dimerization interface [polypeptide binding]; other site 869304000305 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 869304000306 DNA binding site [nucleotide binding] 869304000307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869304000308 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 869304000309 dimerization interface [polypeptide binding]; other site 869304000310 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 869304000311 dimer interface [polypeptide binding]; other site 869304000312 phosphorylation site [posttranslational modification] 869304000313 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 869304000314 ATP binding site [chemical binding]; other site 869304000315 Mg2+ binding site [ion binding]; other site 869304000316 G-X-G motif; other site 869304000317 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 869304000318 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 869304000319 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 869304000320 RNA binding surface [nucleotide binding]; other site 869304000323 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 869304000324 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 869304000325 dimer interface [polypeptide binding]; other site 869304000326 conserved gate region; other site 869304000327 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 869304000328 ABC-ATPase subunit interface; other site 869304000329 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869304000330 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 869304000331 dimer interface [polypeptide binding]; other site 869304000332 conserved gate region; other site 869304000333 putative PBP binding loops; other site 869304000334 ABC-ATPase subunit interface; other site 869304000335 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869304000336 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 869304000337 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 869304000338 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 869304000339 active site residue [active] 869304000340 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 869304000341 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 869304000342 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 869304000343 Predicted membrane protein [Function unknown]; Region: COG4709 869304000344 Predicted transcriptional regulators [Transcription]; Region: COG1695 869304000345 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 869304000346 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 869304000347 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 869304000348 putative substrate translocation pore; other site 869304000349 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 869304000350 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 869304000351 Ligand binding site; other site 869304000352 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 869304000353 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869304000354 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 869304000355 NAD(P) binding site [chemical binding]; other site 869304000356 homodimer interface [polypeptide binding]; other site 869304000357 substrate binding site [chemical binding]; other site 869304000358 active site 869304000359 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 869304000360 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 869304000361 active site 869304000362 motif I; other site 869304000363 motif II; other site 869304000364 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 869304000365 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 869304000366 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 869304000367 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 869304000368 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 869304000369 putative L-serine binding site [chemical binding]; other site 869304000370 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 869304000371 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 869304000372 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304000373 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 869304000374 non-specific DNA binding site [nucleotide binding]; other site 869304000375 salt bridge; other site 869304000376 sequence-specific DNA binding site [nucleotide binding]; other site 869304000377 bacteriocin, lactococcin 972 family; Region: lactococcin_972; TIGR01653 869304000378 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 869304000379 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304000380 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869304000381 Walker A/P-loop; other site 869304000382 ATP binding site [chemical binding]; other site 869304000383 Q-loop/lid; other site 869304000384 ABC transporter signature motif; other site 869304000385 Walker B; other site 869304000386 D-loop; other site 869304000387 H-loop/switch region; other site 869304000388 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 869304000389 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304000390 substrate binding pocket [chemical binding]; other site 869304000391 membrane-bound complex binding site; other site 869304000392 hinge residues; other site 869304000395 Appears to encode the C terminal region of a SPNOXC01480 or SPNOXC1360-type conserved hypothetical protein 869304000397 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 869304000398 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 869304000399 putative active site [active] 869304000400 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304000401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304000402 Walker A/P-loop; other site 869304000403 ATP binding site [chemical binding]; other site 869304000404 Q-loop/lid; other site 869304000405 ABC transporter signature motif; other site 869304000406 Walker B; other site 869304000407 D-loop; other site 869304000408 H-loop/switch region; other site 869304000409 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869304000410 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 869304000411 HlyD family secretion protein; Region: HlyD_3; pfam13437 869304000412 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 869304000413 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869304000414 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000415 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000416 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869304000417 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000418 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000419 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000420 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000421 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304000422 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 869304000423 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 869304000424 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 869304000425 nudix motif; other site 869304000426 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 869304000427 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 869304000428 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 869304000429 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 869304000430 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 869304000431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 869304000432 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 869304000433 hypothetical protein; Provisional; Region: PRK13667 869304000435 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 869304000436 Glycoprotease family; Region: Peptidase_M22; pfam00814 869304000437 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 869304000438 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304000439 Coenzyme A binding pocket [chemical binding]; other site 869304000440 UGMP family protein; Validated; Region: PRK09604 869304000441 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 869304000442 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 869304000444 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 869304000445 Helix-turn-helix domain; Region: HTH_38; pfam13936 869304000446 Transposase; Region: DDE_Tnp_ISL3; pfam01610 869304000449 Apparently inactivated by an internal deletion relative to some orthologues 869304000450 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304000451 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 869304000452 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304000453 Walker A/P-loop; other site 869304000454 ATP binding site [chemical binding]; other site 869304000455 Q-loop/lid; other site 869304000456 ABC transporter signature motif; other site 869304000457 Walker B; other site 869304000458 D-loop; other site 869304000459 H-loop/switch region; other site 869304000462 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 869304000466 H+ Antiporter protein; Region: 2A0121; TIGR00900 869304000467 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 869304000468 Predicted membrane protein [Function unknown]; Region: COG4392 869304000469 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304000470 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 869304000471 substrate binding pocket [chemical binding]; other site 869304000472 membrane-bound complex binding site; other site 869304000473 hinge residues; other site 869304000474 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 869304000475 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 869304000476 hypothetical protein; Provisional; Region: PRK06446 869304000477 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 869304000478 metal binding site [ion binding]; metal-binding site 869304000479 dimer interface [polypeptide binding]; other site 869304000480 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 869304000481 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 869304000482 Walker A/P-loop; other site 869304000483 ATP binding site [chemical binding]; other site 869304000484 Q-loop/lid; other site 869304000485 ABC transporter signature motif; other site 869304000486 Walker B; other site 869304000487 D-loop; other site 869304000488 H-loop/switch region; other site 869304000489 NIL domain; Region: NIL; pfam09383 869304000490 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 869304000491 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 869304000492 Protein of unknown function, DUF624; Region: DUF624; cl02369 869304000493 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869304000494 HAMP domain; Region: HAMP; pfam00672 869304000495 Histidine kinase; Region: His_kinase; pfam06580 869304000496 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 869304000497 ATP binding site [chemical binding]; other site 869304000498 Mg2+ binding site [ion binding]; other site 869304000499 G-X-G motif; other site 869304000500 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 869304000501 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 869304000502 active site 869304000503 phosphorylation site [posttranslational modification] 869304000504 intermolecular recognition site; other site 869304000505 dimerization interface [polypeptide binding]; other site 869304000506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869304000507 flavoprotein NrdI; Provisional; Region: PRK02551 869304000508 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 869304000509 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 869304000510 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869304000511 LytTr DNA-binding domain; Region: LytTR; smart00850 869304000512 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 869304000513 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 869304000514 ATP binding site [chemical binding]; other site 869304000515 Mg2+ binding site [ion binding]; other site 869304000516 G-X-G motif; other site 869304000517 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 869304000518 ATP binding site [chemical binding]; other site 869304000519 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 869304000520 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 869304000521 homopentamer interface [polypeptide binding]; other site 869304000522 active site 869304000523 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 869304000524 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 869304000525 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 869304000526 dimerization interface [polypeptide binding]; other site 869304000527 active site 869304000528 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 869304000529 Lumazine binding domain; Region: Lum_binding; pfam00677 869304000530 Lumazine binding domain; Region: Lum_binding; pfam00677 869304000531 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 869304000532 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 869304000533 catalytic motif [active] 869304000534 Zn binding site [ion binding]; other site 869304000535 RibD C-terminal domain; Region: RibD_C; cl17279 869304000536 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 869304000537 RuvA N terminal domain; Region: RuvA_N; pfam01330 869304000538 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 869304000539 CAAX protease self-immunity; Region: Abi; pfam02517 869304000540 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 869304000541 putative dimer interface [polypeptide binding]; other site 869304000542 catalytic triad [active] 869304000543 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 869304000544 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 869304000545 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 869304000546 Cl binding site [ion binding]; other site 869304000547 oligomer interface [polypeptide binding]; other site 869304000548 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 869304000549 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 869304000550 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 869304000551 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 869304000552 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 869304000553 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 869304000554 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 869304000555 active site 869304000556 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 869304000557 ArsC family; Region: ArsC; pfam03960 869304000558 putative catalytic residues [active] 869304000559 thiol/disulfide switch; other site 869304000560 hypothetical protein; Provisional; Region: PRK05473 869304000561 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 869304000562 hypothetical protein; Provisional; Region: PRK13678 869304000563 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 869304000564 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869304000565 Bacterial lipoprotein; Region: DUF3642; pfam12182 869304000566 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 869304000567 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 869304000568 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 869304000569 putative active site [active] 869304000570 catalytic site [active] 869304000571 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 869304000572 putative active site [active] 869304000573 catalytic site [active] 869304000574 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 869304000575 ATP cone domain; Region: ATP-cone; pfam03477 869304000576 Class III ribonucleotide reductase; Region: RNR_III; cd01675 869304000577 effector binding site; other site 869304000578 active site 869304000579 Zn binding site [ion binding]; other site 869304000580 glycine loop; other site 869304000581 Predicted acetyltransferase [General function prediction only]; Region: COG3981 869304000582 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304000583 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 869304000584 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 869304000585 FeS/SAM binding site; other site 869304000586 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 869304000587 active site 869304000588 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 869304000589 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 869304000590 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 869304000591 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 869304000592 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 869304000593 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 869304000594 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 869304000595 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 869304000596 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 869304000597 putative translocon binding site; other site 869304000598 protein-rRNA interface [nucleotide binding]; other site 869304000599 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 869304000600 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 869304000601 G-X-X-G motif; other site 869304000602 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 869304000603 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 869304000604 23S rRNA interface [nucleotide binding]; other site 869304000605 5S rRNA interface [nucleotide binding]; other site 869304000606 putative antibiotic binding site [chemical binding]; other site 869304000607 L25 interface [polypeptide binding]; other site 869304000608 L27 interface [polypeptide binding]; other site 869304000609 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 869304000610 23S rRNA interface [nucleotide binding]; other site 869304000611 putative translocon interaction site; other site 869304000612 signal recognition particle (SRP54) interaction site; other site 869304000613 L23 interface [polypeptide binding]; other site 869304000614 trigger factor interaction site; other site 869304000615 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 869304000616 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 869304000617 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 869304000618 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 869304000619 RNA binding site [nucleotide binding]; other site 869304000620 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 869304000621 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 869304000622 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 869304000623 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 869304000624 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 869304000625 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 869304000626 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 869304000627 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 869304000628 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 869304000629 5S rRNA interface [nucleotide binding]; other site 869304000630 L27 interface [polypeptide binding]; other site 869304000631 23S rRNA interface [nucleotide binding]; other site 869304000632 L5 interface [polypeptide binding]; other site 869304000633 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 869304000634 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 869304000635 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 869304000636 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 869304000637 23S rRNA binding site [nucleotide binding]; other site 869304000638 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 869304000639 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 869304000640 SecY translocase; Region: SecY; pfam00344 869304000641 adenylate kinase; Reviewed; Region: adk; PRK00279 869304000642 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 869304000643 AMP-binding site [chemical binding]; other site 869304000644 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 869304000645 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 869304000646 rRNA binding site [nucleotide binding]; other site 869304000647 predicted 30S ribosome binding site; other site 869304000648 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 869304000649 30S ribosomal protein S13; Region: bact_S13; TIGR03631 869304000650 30S ribosomal protein S11; Validated; Region: PRK05309 869304000651 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 869304000652 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 869304000653 alphaNTD homodimer interface [polypeptide binding]; other site 869304000654 alphaNTD - beta interaction site [polypeptide binding]; other site 869304000655 alphaNTD - beta' interaction site [polypeptide binding]; other site 869304000656 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 869304000657 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 869304000658 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 869304000659 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 869304000660 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 869304000661 catalytic core [active] 869304000662 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869304000663 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 869304000664 dimer interface [polypeptide binding]; other site 869304000665 conserved gate region; other site 869304000666 putative PBP binding loops; other site 869304000667 ABC-ATPase subunit interface; other site 869304000668 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 869304000669 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869304000670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304000671 Walker A/P-loop; other site 869304000672 ATP binding site [chemical binding]; other site 869304000673 Q-loop/lid; other site 869304000674 ABC transporter signature motif; other site 869304000675 Walker B; other site 869304000676 D-loop; other site 869304000677 H-loop/switch region; other site 869304000678 TOBE domain; Region: TOBE_2; pfam08402 869304000679 CDS apparently disrupted by a RUP element insertion 869304000680 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869304000681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869304000682 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 869304000683 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869304000684 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 869304000685 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869304000686 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 869304000687 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 869304000688 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 869304000689 active site 869304000690 methionine cluster; other site 869304000691 phosphorylation site [posttranslational modification] 869304000692 metal binding site [ion binding]; metal-binding site 869304000693 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 869304000694 active site 869304000695 P-loop; other site 869304000696 phosphorylation site [posttranslational modification] 869304000697 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869304000698 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869304000699 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 869304000700 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 869304000701 dimer interface [polypeptide binding]; other site 869304000702 active site 869304000703 glycine loop; other site 869304000704 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 869304000705 active site 869304000706 intersubunit interactions; other site 869304000707 catalytic residue [active] 869304000708 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 869304000709 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 869304000710 dimer interface [polypeptide binding]; other site 869304000711 active site 869304000712 metal binding site [ion binding]; metal-binding site 869304000713 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 869304000714 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 869304000715 HIGH motif; other site 869304000716 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 869304000717 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869304000718 active site 869304000719 KMSKS motif; other site 869304000720 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 869304000721 tRNA binding surface [nucleotide binding]; other site 869304000722 GNAT acetyltransferase gene disrupted by a RUP insertion and a frameshift mutation 869304000723 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 869304000724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304000725 Coenzyme A binding pocket [chemical binding]; other site 869304000726 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 869304000727 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 869304000728 Walker A motif; other site 869304000729 ATP binding site [chemical binding]; other site 869304000730 Walker B motif; other site 869304000731 arginine finger; other site 869304000732 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 869304000734 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 869304000735 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 869304000736 catalytic residue [active] 869304000737 putative FPP diphosphate binding site; other site 869304000738 putative FPP binding hydrophobic cleft; other site 869304000739 dimer interface [polypeptide binding]; other site 869304000740 putative IPP diphosphate binding site; other site 869304000741 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 869304000742 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 869304000743 RIP metalloprotease RseP; Region: TIGR00054 869304000744 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 869304000745 active site 869304000746 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 869304000747 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 869304000748 putative substrate binding region [chemical binding]; other site 869304000749 prolyl-tRNA synthetase; Provisional; Region: PRK09194 869304000750 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 869304000751 dimer interface [polypeptide binding]; other site 869304000752 motif 1; other site 869304000753 active site 869304000754 motif 2; other site 869304000755 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 869304000756 putative deacylase active site [active] 869304000757 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 869304000758 active site 869304000759 motif 3; other site 869304000760 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 869304000761 anticodon binding site; other site 869304000762 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869304000763 beta-galactosidase; Region: BGL; TIGR03356 869304000764 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 869304000765 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 869304000766 glutaminase active site [active] 869304000767 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 869304000768 dimer interface [polypeptide binding]; other site 869304000769 active site 869304000770 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 869304000771 dimer interface [polypeptide binding]; other site 869304000772 active site 869304000773 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 869304000774 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 869304000775 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 869304000776 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 869304000777 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 869304000778 carbohydrate binding site [chemical binding]; other site 869304000779 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 869304000780 carbohydrate binding site [chemical binding]; other site 869304000781 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 869304000782 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 869304000783 Ca binding site [ion binding]; other site 869304000784 active site 869304000785 catalytic site [active] 869304000786 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 869304000787 S17 interaction site [polypeptide binding]; other site 869304000788 S8 interaction site; other site 869304000789 16S rRNA interaction site [nucleotide binding]; other site 869304000790 streptomycin interaction site [chemical binding]; other site 869304000791 23S rRNA interaction site [nucleotide binding]; other site 869304000792 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 869304000793 30S ribosomal protein S7; Validated; Region: PRK05302 869304000794 elongation factor G; Reviewed; Region: PRK00007 869304000795 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 869304000796 G1 box; other site 869304000797 putative GEF interaction site [polypeptide binding]; other site 869304000798 GTP/Mg2+ binding site [chemical binding]; other site 869304000799 Switch I region; other site 869304000800 G2 box; other site 869304000801 G3 box; other site 869304000802 Switch II region; other site 869304000803 G4 box; other site 869304000804 G5 box; other site 869304000805 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 869304000806 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 869304000807 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 869304000808 DNA polymerase III PolC; Validated; Region: polC; PRK00448 869304000809 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 869304000810 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 869304000811 generic binding surface II; other site 869304000812 generic binding surface I; other site 869304000813 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 869304000814 active site 869304000815 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869304000816 active site 869304000817 catalytic site [active] 869304000818 substrate binding site [chemical binding]; other site 869304000819 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 869304000820 putative PHP Thumb interface [polypeptide binding]; other site 869304000821 active site 869304000822 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 869304000823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 869304000824 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 869304000825 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 869304000826 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869304000827 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 869304000828 RNA binding surface [nucleotide binding]; other site 869304000829 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 869304000830 active site 869304000831 uracil binding [chemical binding]; other site 869304000832 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 869304000833 trimer interface [polypeptide binding]; other site 869304000834 active site 869304000835 G bulge; other site 869304000836 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869304000837 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 869304000838 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 869304000839 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 869304000840 active pocket/dimerization site; other site 869304000841 active site 869304000842 phosphorylation site [posttranslational modification] 869304000843 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 869304000844 active site 869304000845 phosphorylation site [posttranslational modification] 869304000846 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 869304000847 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 869304000848 NAD binding site [chemical binding]; other site 869304000849 substrate binding site [chemical binding]; other site 869304000850 catalytic Zn binding site [ion binding]; other site 869304000851 tetramer interface [polypeptide binding]; other site 869304000852 structural Zn binding site [ion binding]; other site 869304000853 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869304000854 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 869304000855 active site 869304000856 motif I; other site 869304000857 motif II; other site 869304000858 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 869304000859 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 869304000860 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 869304000861 dihydropteroate synthase; Region: DHPS; TIGR01496 869304000862 substrate binding pocket [chemical binding]; other site 869304000863 dimer interface [polypeptide binding]; other site 869304000864 inhibitor binding site; inhibition site 869304000865 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 869304000866 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869304000867 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869304000868 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 869304000869 homodecamer interface [polypeptide binding]; other site 869304000870 GTP cyclohydrolase I; Provisional; Region: PLN03044 869304000871 active site 869304000872 putative catalytic site residues [active] 869304000873 zinc binding site [ion binding]; other site 869304000874 GTP-CH-I/GFRP interaction surface; other site 869304000875 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 869304000876 homooctamer interface [polypeptide binding]; other site 869304000877 active site 869304000878 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 869304000879 catalytic center binding site [active] 869304000880 ATP binding site [chemical binding]; other site 869304000881 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 869304000882 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 869304000883 23S rRNA interface [nucleotide binding]; other site 869304000884 L3 interface [polypeptide binding]; other site 869304000885 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 869304000886 Uncharacterized conserved protein [Function unknown]; Region: COG1359 869304000887 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 869304000888 beta-galactosidase; Region: BGL; TIGR03356 869304000889 Uncharacterized conserved protein [Function unknown]; Region: COG4095 869304000890 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 869304000891 active site 869304000892 P-loop; other site 869304000893 phosphorylation site [posttranslational modification] 869304000894 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869304000895 HTH domain; Region: HTH_11; pfam08279 869304000896 Mga helix-turn-helix domain; Region: Mga; pfam05043 869304000897 PRD domain; Region: PRD; pfam00874 869304000898 PRD domain; Region: PRD; pfam00874 869304000899 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 869304000900 active site 869304000901 P-loop; other site 869304000902 phosphorylation site [posttranslational modification] 869304000903 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 869304000904 active site 869304000905 phosphorylation site [posttranslational modification] 869304000906 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 869304000907 methionine cluster; other site 869304000908 active site 869304000909 phosphorylation site [posttranslational modification] 869304000910 metal binding site [ion binding]; metal-binding site 869304000911 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869304000912 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869304000915 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 869304000916 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 869304000917 putative active site [active] 869304000918 putative catalytic site [active] 869304000919 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 869304000920 catalytic residues [active] 869304000921 dimer interface [polypeptide binding]; other site 869304000924 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 869304000925 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 869304000926 active site 869304000927 intersubunit interface [polypeptide binding]; other site 869304000928 catalytic residue [active] 869304000929 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 869304000930 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 869304000931 substrate binding site [chemical binding]; other site 869304000932 ATP binding site [chemical binding]; other site 869304000933 hypothetical protein; Provisional; Region: PRK09273 869304000934 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 869304000935 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 869304000936 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 869304000937 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 869304000938 NADP binding site [chemical binding]; other site 869304000939 homodimer interface [polypeptide binding]; other site 869304000940 active site 869304000941 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 869304000942 active pocket/dimerization site; other site 869304000943 active site 869304000944 phosphorylation site [posttranslational modification] 869304000945 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 869304000946 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 869304000947 active site 869304000948 phosphorylation site [posttranslational modification] 869304000949 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 869304000950 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869304000951 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 869304000952 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 869304000953 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869304000954 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869304000955 DNA binding site [nucleotide binding] 869304000956 domain linker motif; other site 869304000957 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 869304000958 putative dimerization interface [polypeptide binding]; other site 869304000959 putative ligand binding site [chemical binding]; other site 869304000960 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 869304000961 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 869304000962 non-specific DNA binding site [nucleotide binding]; other site 869304000963 salt bridge; other site 869304000964 sequence-specific DNA binding site [nucleotide binding]; other site 869304000965 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 869304000966 MraW methylase family; Region: Methyltransf_5; pfam01795 869304000967 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 869304000968 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 869304000969 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 869304000970 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 869304000971 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 869304000972 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 869304000973 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 869304000974 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 869304000975 Mg++ binding site [ion binding]; other site 869304000976 putative catalytic motif [active] 869304000977 putative substrate binding site [chemical binding]; other site 869304000978 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 869304000979 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 869304000980 Walker A motif; other site 869304000981 ATP binding site [chemical binding]; other site 869304000982 Walker B motif; other site 869304000983 arginine finger; other site 869304000984 UvrB/uvrC motif; Region: UVR; pfam02151 869304000985 MoxR-like ATPases [General function prediction only]; Region: COG0714 869304000986 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 869304000987 Walker A motif; other site 869304000988 ATP binding site [chemical binding]; other site 869304000989 Walker B motif; other site 869304000990 arginine finger; other site 869304000991 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869304000992 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 869304000993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 869304000994 hypothetical protein; Provisional; Region: PRK13663 869304000995 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 869304000996 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 869304000997 Ca binding site [ion binding]; other site 869304000998 active site 869304000999 catalytic site [active] 869304001004 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 869304001005 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 869304001007 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 869304001008 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 869304001009 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 869304001010 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 869304001011 Hyaluronan synthases catalyze polymerization of hyaluronan; Region: GT2_HAS; cd06434 869304001012 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 869304001013 DXD motif; other site 869304001014 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 869304001015 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 869304001016 active site 869304001017 tetramer interface; other site 869304001018 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 869304001019 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 869304001020 active site 869304001021 substrate binding site [chemical binding]; other site 869304001022 metal binding site [ion binding]; metal-binding site 869304001023 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 869304001024 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869304001025 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 869304001026 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869304001027 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 869304001028 Transglycosylase; Region: Transgly; pfam00912 869304001029 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 869304001030 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869304001031 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 869304001032 hypothetical protein; Provisional; Region: PRK13660 869304001033 cell division protein GpsB; Provisional; Region: PRK14127 869304001034 DivIVA domain; Region: DivI1A_domain; TIGR03544 869304001035 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 869304001036 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 869304001037 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 869304001038 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 869304001039 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 869304001040 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 869304001041 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304001042 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 869304001043 active site 869304001044 phosphorylation site [posttranslational modification] 869304001045 intermolecular recognition site; other site 869304001046 dimerization interface [polypeptide binding]; other site 869304001047 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 869304001048 DNA binding site [nucleotide binding] 869304001049 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304001050 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304001051 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 869304001052 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 869304001053 active site 869304001054 zinc binding site [ion binding]; other site 869304001055 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 869304001056 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 869304001057 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869304001058 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869304001059 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 869304001060 diphosphomevalonate decarboxylase; Region: PLN02407 869304001061 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 869304001062 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869304001063 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 869304001064 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 869304001065 homotetramer interface [polypeptide binding]; other site 869304001066 FMN binding site [chemical binding]; other site 869304001067 homodimer contacts [polypeptide binding]; other site 869304001068 putative active site [active] 869304001069 putative substrate binding site [chemical binding]; other site 869304001070 Predicted membrane protein [Function unknown]; Region: COG4758 869304001071 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 869304001072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869304001073 Histidine kinase; Region: HisKA_3; pfam07730 869304001074 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 869304001075 ATP binding site [chemical binding]; other site 869304001076 Mg2+ binding site [ion binding]; other site 869304001077 G-X-G motif; other site 869304001078 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 869304001079 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 869304001080 active site 869304001081 phosphorylation site [posttranslational modification] 869304001082 intermolecular recognition site; other site 869304001083 dimerization interface [polypeptide binding]; other site 869304001084 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 869304001085 DNA binding residues [nucleotide binding] 869304001086 dimerization interface [polypeptide binding]; other site 869304001087 Appears to have been disrupted through the insertion of a BOX element; Gene model based on TIGR4 annotation and Fasta sequence similarity 869304001089 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 869304001090 DNA binding site [nucleotide binding] 869304001091 Int/Topo IB signature motif; other site 869304001092 active site 869304001093 trigger factor; Provisional; Region: tig; PRK01490 869304001094 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 869304001095 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 869304001096 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 869304001097 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 869304001098 DNA binding site [nucleotide binding] 869304001099 AAA domain; Region: AAA_30; pfam13604 869304001100 Family description; Region: UvrD_C_2; pfam13538 869304001101 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 869304001102 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 869304001103 Catalytic site [active] 869304001104 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 869304001105 ribonuclease HIII; Provisional; Region: PRK00996 869304001106 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 869304001107 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 869304001108 RNA/DNA hybrid binding site [nucleotide binding]; other site 869304001109 active site 869304001110 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 869304001111 Colicin V production protein; Region: Colicin_V; pfam02674 869304001112 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 869304001113 MutS domain III; Region: MutS_III; pfam05192 869304001114 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 869304001115 Walker A/P-loop; other site 869304001116 ATP binding site [chemical binding]; other site 869304001117 Q-loop/lid; other site 869304001118 ABC transporter signature motif; other site 869304001119 Walker B; other site 869304001120 D-loop; other site 869304001121 H-loop/switch region; other site 869304001122 Smr domain; Region: Smr; pfam01713 869304001123 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 869304001124 amino acid carrier protein; Region: agcS; TIGR00835 869304001125 Uncharacterized conserved protein [Function unknown]; Region: COG2128 869304001126 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 869304001127 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 869304001128 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 869304001129 gating phenylalanine in ion channel; other site 869304001130 seryl-tRNA synthetase; Provisional; Region: PRK05431 869304001131 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 869304001132 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 869304001133 dimer interface [polypeptide binding]; other site 869304001134 active site 869304001135 motif 1; other site 869304001136 motif 2; other site 869304001137 motif 3; other site 869304001138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 869304001139 aspartate kinase; Reviewed; Region: PRK09034 869304001140 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 869304001141 putative catalytic residues [active] 869304001142 putative nucleotide binding site [chemical binding]; other site 869304001143 putative aspartate binding site [chemical binding]; other site 869304001144 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 869304001145 allosteric regulatory residue; other site 869304001146 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 869304001147 enoyl-CoA hydratase; Provisional; Region: PRK07260 869304001148 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 869304001149 substrate binding site [chemical binding]; other site 869304001150 oxyanion hole (OAH) forming residues; other site 869304001151 trimer interface [polypeptide binding]; other site 869304001152 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 869304001153 MarR family; Region: MarR_2; pfam12802 869304001154 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 869304001155 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 869304001156 dimer interface [polypeptide binding]; other site 869304001157 active site 869304001158 CoA binding pocket [chemical binding]; other site 869304001159 acyl carrier protein; Provisional; Region: acpP; PRK00982 869304001160 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 869304001161 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 869304001162 FMN binding site [chemical binding]; other site 869304001163 substrate binding site [chemical binding]; other site 869304001164 putative catalytic residue [active] 869304001165 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 869304001166 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 869304001167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 869304001168 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 869304001169 NAD(P) binding site [chemical binding]; other site 869304001170 homotetramer interface [polypeptide binding]; other site 869304001171 homodimer interface [polypeptide binding]; other site 869304001172 active site 869304001173 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 869304001174 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 869304001175 dimer interface [polypeptide binding]; other site 869304001176 active site 869304001177 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 869304001178 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 869304001179 carboxyltransferase (CT) interaction site; other site 869304001180 biotinylation site [posttranslational modification]; other site 869304001181 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 869304001182 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 869304001183 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869304001184 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 869304001185 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 869304001186 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 869304001187 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 869304001188 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 869304001189 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 869304001190 CAAX protease self-immunity; Region: Abi; pfam02517 869304001192 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 869304001193 putative RNA binding site [nucleotide binding]; other site 869304001194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869304001195 elongation factor P; Validated; Region: PRK00529 869304001196 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 869304001197 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 869304001198 RNA binding site [nucleotide binding]; other site 869304001199 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 869304001200 RNA binding site [nucleotide binding]; other site 869304001201 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 869304001202 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 869304001203 GatB domain; Region: GatB_Yqey; pfam02637 869304001204 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 869304001205 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 869304001206 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 869304001209 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 869304001210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869304001211 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 869304001212 DAK2 domain; Region: Dak2; pfam02734 869304001213 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 869304001214 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 869304001215 PYR/PP interface [polypeptide binding]; other site 869304001216 dimer interface [polypeptide binding]; other site 869304001217 TPP binding site [chemical binding]; other site 869304001218 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 869304001219 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 869304001220 TPP-binding site [chemical binding]; other site 869304001221 dimer interface [polypeptide binding]; other site 869304001222 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 869304001223 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 869304001224 putative valine binding site [chemical binding]; other site 869304001225 dimer interface [polypeptide binding]; other site 869304001226 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 869304001227 ketol-acid reductoisomerase; Provisional; Region: PRK05479 869304001228 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 869304001229 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 869304001231 threonine dehydratase; Validated; Region: PRK08639 869304001232 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 869304001233 tetramer interface [polypeptide binding]; other site 869304001234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304001235 catalytic residue [active] 869304001236 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 869304001237 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869304001238 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304001239 Walker A/P-loop; other site 869304001240 ATP binding site [chemical binding]; other site 869304001241 Q-loop/lid; other site 869304001242 ABC transporter signature motif; other site 869304001243 Walker B; other site 869304001244 D-loop; other site 869304001245 H-loop/switch region; other site 869304001246 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 869304001247 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304001248 substrate binding pocket [chemical binding]; other site 869304001249 membrane-bound complex binding site; other site 869304001250 hinge residues; other site 869304001251 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 869304001252 dimer interface [polypeptide binding]; other site 869304001253 conserved gate region; other site 869304001254 putative PBP binding loops; other site 869304001255 ABC-ATPase subunit interface; other site 869304001256 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 869304001258 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 869304001259 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 869304001260 active site 869304001261 DNA polymerase IV; Validated; Region: PRK02406 869304001262 DNA binding site [nucleotide binding] 869304001263 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 869304001264 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 869304001266 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 869304001267 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 869304001268 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 869304001269 TrkA-N domain; Region: TrkA_N; pfam02254 869304001270 TrkA-C domain; Region: TrkA_C; pfam02080 869304001271 TrkA-N domain; Region: TrkA_N; pfam02254 869304001272 TrkA-C domain; Region: TrkA_C; pfam02080 869304001273 Uncharacterized conserved protein [Function unknown]; Region: COG1912 869304001274 hypothetical protein; Provisional; Region: PRK13661 869304001275 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869304001276 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869304001277 Walker A/P-loop; other site 869304001278 ATP binding site [chemical binding]; other site 869304001279 Q-loop/lid; other site 869304001280 ABC transporter signature motif; other site 869304001281 Walker B; other site 869304001282 D-loop; other site 869304001283 H-loop/switch region; other site 869304001284 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 869304001285 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869304001286 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869304001287 Walker A/P-loop; other site 869304001288 ATP binding site [chemical binding]; other site 869304001289 Q-loop/lid; other site 869304001290 ABC transporter signature motif; other site 869304001291 Walker B; other site 869304001292 D-loop; other site 869304001293 H-loop/switch region; other site 869304001294 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869304001295 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 869304001296 Predicted membrane protein [Function unknown]; Region: COG3601 869304001297 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 869304001298 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 869304001299 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 869304001300 active site 869304001301 ParB-like nuclease domain; Region: ParBc; cl02129 869304001302 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304001303 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869304001304 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 869304001305 CTP synthetase; Validated; Region: pyrG; PRK05380 869304001306 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 869304001307 Catalytic site [active] 869304001308 active site 869304001309 UTP binding site [chemical binding]; other site 869304001310 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 869304001311 active site 869304001312 putative oxyanion hole; other site 869304001313 catalytic triad [active] 869304001314 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 869304001315 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 869304001316 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 869304001317 PhoU domain; Region: PhoU; pfam01895 869304001318 PhoU domain; Region: PhoU; pfam01895 869304001319 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869304001320 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 869304001321 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 869304001322 putative active site [active] 869304001323 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869304001324 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 869304001325 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 869304001326 G5 domain; Region: G5; pfam07501 869304001327 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 869304001328 Phosphoglycerate kinase; Region: PGK; pfam00162 869304001329 substrate binding site [chemical binding]; other site 869304001330 hinge regions; other site 869304001331 ADP binding site [chemical binding]; other site 869304001332 catalytic site [active] 869304001333 Predicted membrane protein [Function unknown]; Region: COG4129 869304001334 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 869304001335 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 869304001336 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 869304001337 DNA binding residues [nucleotide binding] 869304001338 putative dimer interface [polypeptide binding]; other site 869304001339 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 869304001340 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 869304001341 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 869304001342 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 869304001343 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869304001344 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 869304001345 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 869304001346 Int/Topo IB signature motif; other site 869304001347 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869304001349 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 869304001350 HsdM N-terminal domain; Region: HsdM_N; pfam12161 869304001351 Methyltransferase domain; Region: Methyltransf_26; pfam13659 869304001352 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 869304001353 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 869304001354 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 869304001355 ATP binding site [chemical binding]; other site 869304001356 putative Mg++ binding site [ion binding]; other site 869304001357 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 869304001358 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 869304001359 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 869304001360 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 869304001361 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 869304001362 dimer interface [polypeptide binding]; other site 869304001363 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 869304001364 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 869304001365 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 869304001366 nucleotide binding site [chemical binding]; other site 869304001367 NEF interaction site [polypeptide binding]; other site 869304001368 SBD interface [polypeptide binding]; other site 869304001369 chaperone protein DnaJ; Provisional; Region: PRK14276 869304001370 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 869304001371 HSP70 interaction site [polypeptide binding]; other site 869304001372 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 869304001373 substrate binding site [polypeptide binding]; other site 869304001374 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 869304001375 Zn binding sites [ion binding]; other site 869304001376 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 869304001377 substrate binding site [polypeptide binding]; other site 869304001378 dimer interface [polypeptide binding]; other site 869304001379 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 869304001380 HIT family signature motif; other site 869304001381 catalytic residue [active] 869304001382 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 869304001383 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869304001384 Walker A/P-loop; other site 869304001385 ATP binding site [chemical binding]; other site 869304001386 Q-loop/lid; other site 869304001387 ABC transporter signature motif; other site 869304001388 Walker B; other site 869304001389 D-loop; other site 869304001390 H-loop/switch region; other site 869304001391 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 869304001392 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 869304001393 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869304001394 LytTr DNA-binding domain; Region: LytTR; pfam04397 869304001395 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869304001396 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 869304001397 active site 869304001398 phosphorylation site [posttranslational modification] 869304001399 intermolecular recognition site; other site 869304001400 dimerization interface [polypeptide binding]; other site 869304001401 LytTr DNA-binding domain; Region: LytTR; pfam04397 869304001402 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869304001403 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 869304001404 ATP binding site [chemical binding]; other site 869304001405 Mg2+ binding site [ion binding]; other site 869304001406 G-X-G motif; other site 869304001407 COMC family; Region: ComC; pfam03047 869304001408 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869304001409 HlyD family secretion protein; Region: HlyD_3; pfam13437 869304001411 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 869304001412 putative active site [active] 869304001414 CAAX protease self-immunity; Region: Abi; pfam02517 869304001415 CAAX protease self-immunity; Region: Abi; pfam02517 869304001416 Phosphotransferase enzyme family; Region: APH; pfam01636 869304001417 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 869304001418 substrate binding site [chemical binding]; other site 869304001419 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 869304001420 S-adenosylmethionine binding site [chemical binding]; other site 869304001421 ribosome maturation protein RimP; Reviewed; Region: PRK00092 869304001422 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 869304001423 putative oligomer interface [polypeptide binding]; other site 869304001424 putative RNA binding site [nucleotide binding]; other site 869304001425 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 869304001426 NusA N-terminal domain; Region: NusA_N; pfam08529 869304001427 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 869304001428 RNA binding site [nucleotide binding]; other site 869304001429 homodimer interface [polypeptide binding]; other site 869304001430 NusA-like KH domain; Region: KH_5; pfam13184 869304001431 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 869304001432 G-X-X-G motif; other site 869304001433 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 869304001434 putative RNA binding cleft [nucleotide binding]; other site 869304001435 hypothetical protein; Provisional; Region: PRK07283 869304001436 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 869304001437 translation initiation factor IF-2; Region: IF-2; TIGR00487 869304001438 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 869304001439 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 869304001440 G1 box; other site 869304001441 putative GEF interaction site [polypeptide binding]; other site 869304001442 GTP/Mg2+ binding site [chemical binding]; other site 869304001443 Switch I region; other site 869304001444 G2 box; other site 869304001445 G3 box; other site 869304001446 Switch II region; other site 869304001447 G4 box; other site 869304001448 G5 box; other site 869304001449 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 869304001450 Translation-initiation factor 2; Region: IF-2; pfam11987 869304001451 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 869304001452 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 869304001453 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 869304001454 Uncharacterized conserved protein [Function unknown]; Region: COG2461 869304001455 Family of unknown function (DUF438); Region: DUF438; pfam04282 869304001456 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 869304001457 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 869304001458 putative active site [active] 869304001459 heme pocket [chemical binding]; other site 869304001460 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 869304001461 hypothetical protein; Provisional; Region: PRK07758 869304001462 Flavin Reductases; Region: FlaRed; cl00801 869304001463 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869304001464 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304001465 Coenzyme A binding pocket [chemical binding]; other site 869304001466 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 869304001467 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869304001468 active site 869304001469 HIGH motif; other site 869304001470 nucleotide binding site [chemical binding]; other site 869304001471 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 869304001472 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 869304001473 active site 869304001474 KMSKS motif; other site 869304001475 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 869304001476 tRNA binding surface [nucleotide binding]; other site 869304001477 anticodon binding site; other site 869304001478 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 869304001479 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 869304001480 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 869304001481 Fic/DOC family; Region: Fic; pfam02661 869304001484 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 869304001485 putative active site [active] 869304001486 catalytic site [active] 869304001487 transcriptional antiterminator BglG; Provisional; Region: PRK09772 869304001488 CAT RNA binding domain; Region: CAT_RBD; smart01061 869304001489 PRD domain; Region: PRD; pfam00874 869304001490 PRD domain; Region: PRD; pfam00874 869304001491 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 869304001492 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 869304001493 active site turn [active] 869304001494 phosphorylation site [posttranslational modification] 869304001495 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869304001496 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 869304001497 HPr interaction site; other site 869304001498 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869304001499 active site 869304001500 phosphorylation site [posttranslational modification] 869304001501 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869304001502 beta-galactosidase; Region: BGL; TIGR03356 869304001503 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 869304001504 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 869304001505 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 869304001506 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 869304001507 dimer interface [polypeptide binding]; other site 869304001508 motif 1; other site 869304001509 active site 869304001510 motif 2; other site 869304001511 motif 3; other site 869304001512 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869304001513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304001514 Coenzyme A binding pocket [chemical binding]; other site 869304001515 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 869304001516 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 869304001517 putative tRNA-binding site [nucleotide binding]; other site 869304001518 B3/4 domain; Region: B3_4; pfam03483 869304001519 tRNA synthetase B5 domain; Region: B5; smart00874 869304001520 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 869304001521 dimer interface [polypeptide binding]; other site 869304001522 motif 1; other site 869304001523 motif 3; other site 869304001524 motif 2; other site 869304001525 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 869304001526 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 869304001527 putative catalytic site [active] 869304001528 putative metal binding site [ion binding]; other site 869304001529 putative phosphate binding site [ion binding]; other site 869304001531 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 869304001532 non-specific DNA binding site [nucleotide binding]; other site 869304001533 salt bridge; other site 869304001534 sequence-specific DNA binding site [nucleotide binding]; other site 869304001535 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 869304001536 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 869304001537 THF binding site; other site 869304001538 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 869304001539 substrate binding site [chemical binding]; other site 869304001540 THF binding site; other site 869304001541 zinc-binding site [ion binding]; other site 869304001542 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 869304001543 FAD binding site [chemical binding]; other site 869304001544 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 869304001545 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 869304001546 RNase E interface [polypeptide binding]; other site 869304001547 trimer interface [polypeptide binding]; other site 869304001548 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 869304001549 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 869304001550 RNase E interface [polypeptide binding]; other site 869304001551 trimer interface [polypeptide binding]; other site 869304001552 active site 869304001553 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 869304001554 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 869304001555 RNA binding site [nucleotide binding]; other site 869304001556 domain interface; other site 869304001557 serine O-acetyltransferase; Region: cysE; TIGR01172 869304001558 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 869304001559 trimer interface [polypeptide binding]; other site 869304001560 active site 869304001561 substrate binding site [chemical binding]; other site 869304001562 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304001563 Coenzyme A binding pocket [chemical binding]; other site 869304001564 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304001565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304001566 Coenzyme A binding pocket [chemical binding]; other site 869304001567 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 869304001568 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 869304001569 active site 869304001570 HIGH motif; other site 869304001571 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 869304001572 KMSKS motif; other site 869304001573 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 869304001574 tRNA binding surface [nucleotide binding]; other site 869304001575 anticodon binding site; other site 869304001576 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 869304001577 active site 869304001578 metal binding site [ion binding]; metal-binding site 869304001579 dimerization interface [polypeptide binding]; other site 869304001580 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 869304001581 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 869304001582 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 869304001584 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 869304001585 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869304001586 FtsX-like permease family; Region: FtsX; pfam02687 869304001587 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304001588 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304001589 Walker A/P-loop; other site 869304001590 ATP binding site [chemical binding]; other site 869304001591 Q-loop/lid; other site 869304001592 ABC transporter signature motif; other site 869304001593 Walker B; other site 869304001594 D-loop; other site 869304001595 H-loop/switch region; other site 869304001596 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869304001597 FtsX-like permease family; Region: FtsX; pfam02687 869304001598 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304001599 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 869304001600 active site 869304001601 phosphorylation site [posttranslational modification] 869304001602 intermolecular recognition site; other site 869304001603 dimerization interface [polypeptide binding]; other site 869304001604 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 869304001605 DNA binding site [nucleotide binding] 869304001606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869304001607 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 869304001608 dimerization interface [polypeptide binding]; other site 869304001609 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 869304001610 dimer interface [polypeptide binding]; other site 869304001611 phosphorylation site [posttranslational modification] 869304001612 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 869304001613 ATP binding site [chemical binding]; other site 869304001614 Mg2+ binding site [ion binding]; other site 869304001615 G-X-G motif; other site 869304001616 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 869304001617 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 869304001618 intersubunit interface [polypeptide binding]; other site 869304001619 active site 869304001620 zinc binding site [ion binding]; other site 869304001621 Na+ binding site [ion binding]; other site 869304001623 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 869304001624 dimer interface [polypeptide binding]; other site 869304001625 conserved gate region; other site 869304001626 putative PBP binding loops; other site 869304001627 ABC-ATPase subunit interface; other site 869304001628 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 869304001629 dimer interface [polypeptide binding]; other site 869304001630 conserved gate region; other site 869304001631 putative PBP binding loops; other site 869304001632 ABC-ATPase subunit interface; other site 869304001633 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 869304001634 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304001635 substrate binding pocket [chemical binding]; other site 869304001636 membrane-bound complex binding site; other site 869304001637 hinge residues; other site 869304001638 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869304001639 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869304001640 Walker A/P-loop; other site 869304001641 ATP binding site [chemical binding]; other site 869304001642 Q-loop/lid; other site 869304001643 ABC transporter signature motif; other site 869304001644 Walker B; other site 869304001645 D-loop; other site 869304001646 H-loop/switch region; other site 869304001648 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 869304001649 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869304001650 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 869304001651 Predicted esterase [General function prediction only]; Region: COG0627 869304001652 S-formylglutathione hydrolase; Region: PLN02442 869304001653 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 869304001654 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 869304001655 FemAB family; Region: FemAB; pfam02388 869304001656 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 869304001657 active site 869304001658 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 869304001659 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 869304001660 GIY-YIG motif/motif A; other site 869304001661 active site 869304001662 catalytic site [active] 869304001663 putative DNA binding site [nucleotide binding]; other site 869304001664 metal binding site [ion binding]; metal-binding site 869304001665 UvrB/uvrC motif; Region: UVR; pfam02151 869304001666 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 869304001667 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 869304001668 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 869304001669 active site 869304001670 metal binding site [ion binding]; metal-binding site 869304001671 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304001672 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 869304001673 substrate binding pocket [chemical binding]; other site 869304001674 membrane-bound complex binding site; other site 869304001675 hinge residues; other site 869304001676 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 869304001677 dimer interface [polypeptide binding]; other site 869304001678 FMN binding site [chemical binding]; other site 869304001679 dipeptidase PepV; Reviewed; Region: PRK07318 869304001680 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 869304001681 active site 869304001682 metal binding site [ion binding]; metal-binding site 869304001683 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 869304001684 putative uracil binding site [chemical binding]; other site 869304001685 putative active site [active] 869304001686 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 869304001688 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 869304001689 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 869304001690 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 869304001691 putative oligomer interface [polypeptide binding]; other site 869304001692 putative active site [active] 869304001693 metal binding site [ion binding]; metal-binding site 869304001695 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 869304001696 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 869304001697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 869304001698 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 869304001699 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 869304001700 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 869304001701 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 869304001702 23S rRNA interface [nucleotide binding]; other site 869304001703 L7/L12 interface [polypeptide binding]; other site 869304001704 putative thiostrepton binding site; other site 869304001705 L25 interface [polypeptide binding]; other site 869304001706 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 869304001707 mRNA/rRNA interface [nucleotide binding]; other site 869304001709 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 869304001710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304001711 Walker A/P-loop; other site 869304001712 ATP binding site [chemical binding]; other site 869304001713 Q-loop/lid; other site 869304001714 ABC transporter signature motif; other site 869304001715 Walker B; other site 869304001716 D-loop; other site 869304001717 H-loop/switch region; other site 869304001718 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869304001719 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869304001720 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 869304001721 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869304001722 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 869304001723 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 869304001724 putative active site [active] 869304001725 catalytic triad [active] 869304001726 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 869304001727 PA/protease or protease-like domain interface [polypeptide binding]; other site 869304001728 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 869304001729 catalytic residues [active] 869304001730 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 869304001731 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 869304001732 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 869304001733 active site 869304001734 phosphorylation site [posttranslational modification] 869304001735 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 869304001736 active site 869304001737 P-loop; other site 869304001738 phosphorylation site [posttranslational modification] 869304001739 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 869304001740 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 869304001741 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 869304001742 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 869304001743 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 869304001744 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 869304001745 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 869304001746 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869304001747 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869304001748 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869304001749 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869304001750 G5 domain; Region: G5; pfam07501 869304001751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 869304001752 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 869304001753 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 869304001754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 869304001755 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 869304001756 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 869304001757 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 869304001758 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 869304001759 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 869304001760 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 869304001761 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 869304001762 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 869304001763 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 869304001764 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 869304001765 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869304001766 catalytic residues [active] 869304001767 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 869304001768 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 869304001769 SelR domain; Region: SelR; pfam01641 869304001770 Response regulator receiver domain; Region: Response_reg; pfam00072 869304001771 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 869304001772 active site 869304001773 phosphorylation site [posttranslational modification] 869304001774 intermolecular recognition site; other site 869304001775 dimerization interface [polypeptide binding]; other site 869304001776 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869304001777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869304001778 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869304001779 Cache domain; Region: Cache_1; pfam02743 869304001780 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 869304001781 dimerization interface [polypeptide binding]; other site 869304001782 Histidine kinase; Region: His_kinase; pfam06580 869304001783 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 869304001784 ATP binding site [chemical binding]; other site 869304001785 Mg2+ binding site [ion binding]; other site 869304001786 G-X-G motif; other site 869304001787 hypothetical protein; Provisional; Region: PRK13690 869304001788 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 869304001789 MARCKS family; Region: MARCKS; pfam02063 869304001790 G5 domain; Region: G5; pfam07501 869304001791 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 869304001792 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 869304001793 aminodeoxychorismate synthase; Provisional; Region: PRK07508 869304001794 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 869304001795 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 869304001796 substrate-cofactor binding pocket; other site 869304001797 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 869304001798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304001799 catalytic residue [active] 869304001800 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 869304001801 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304001802 Excalibur calcium-binding domain; Region: Excalibur; smart00894 869304001803 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 869304001804 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869304001805 nucleotide binding site [chemical binding]; other site 869304001806 thymidylate synthase; Reviewed; Region: thyA; PRK01827 869304001807 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 869304001808 dimerization interface [polypeptide binding]; other site 869304001809 active site 869304001810 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 869304001811 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 869304001812 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 869304001813 GTPases [General function prediction only]; Region: HflX; COG2262 869304001814 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 869304001815 HflX GTPase family; Region: HflX; cd01878 869304001816 G1 box; other site 869304001817 GTP/Mg2+ binding site [chemical binding]; other site 869304001818 Switch I region; other site 869304001819 G2 box; other site 869304001820 G3 box; other site 869304001821 Switch II region; other site 869304001822 G4 box; other site 869304001823 G5 box; other site 869304001824 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 869304001825 ribonuclease Z; Region: RNase_Z; TIGR02651 869304001826 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 869304001827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869304001828 NAD(P) binding site [chemical binding]; other site 869304001829 active site 869304001830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 869304001831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 869304001832 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 869304001833 dimerization interface [polypeptide binding]; other site 869304001834 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 869304001835 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 869304001836 active site residue [active] 869304001837 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869304001838 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 869304001839 RNA binding surface [nucleotide binding]; other site 869304001840 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 869304001841 active site 869304001842 uracil binding [chemical binding]; other site 869304001843 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 869304001844 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 869304001845 G1 box; other site 869304001846 putative GEF interaction site [polypeptide binding]; other site 869304001847 GTP/Mg2+ binding site [chemical binding]; other site 869304001848 Switch I region; other site 869304001849 G2 box; other site 869304001850 G3 box; other site 869304001851 Switch II region; other site 869304001852 G4 box; other site 869304001853 G5 box; other site 869304001854 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 869304001855 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 869304001856 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 869304001857 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 869304001858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869304001859 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869304001860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304001861 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869304001862 Walker A/P-loop; other site 869304001863 ATP binding site [chemical binding]; other site 869304001864 Q-loop/lid; other site 869304001865 ABC transporter signature motif; other site 869304001866 Walker B; other site 869304001867 D-loop; other site 869304001868 H-loop/switch region; other site 869304001869 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 869304001870 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 869304001871 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869304001872 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869304001873 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 869304001874 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 869304001875 homodimer interface [polypeptide binding]; other site 869304001876 active site 869304001877 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 869304001878 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 869304001879 Cell division protein FtsQ; Region: FtsQ; pfam03799 869304001880 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 869304001881 active site 869304001882 dimer interface [polypeptide binding]; other site 869304001883 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304001884 active site 869304001885 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304001886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304001887 Walker A/P-loop; other site 869304001888 ATP binding site [chemical binding]; other site 869304001889 Q-loop/lid; other site 869304001890 ABC transporter signature motif; other site 869304001891 Walker B; other site 869304001892 D-loop; other site 869304001893 H-loop/switch region; other site 869304001894 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 869304001895 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 869304001896 substrate binding pocket [chemical binding]; other site 869304001897 membrane-bound complex binding site; other site 869304001898 hinge residues; other site 869304001900 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 869304001901 dimer interface [polypeptide binding]; other site 869304001902 conserved gate region; other site 869304001903 putative PBP binding loops; other site 869304001904 ABC-ATPase subunit interface; other site 869304001905 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 869304001906 dimer interface [polypeptide binding]; other site 869304001907 conserved gate region; other site 869304001908 putative PBP binding loops; other site 869304001909 ABC-ATPase subunit interface; other site 869304001910 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 869304001911 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 869304001912 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 869304001913 dimer interface [polypeptide binding]; other site 869304001914 putative anticodon binding site; other site 869304001915 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 869304001916 motif 1; other site 869304001917 active site 869304001918 motif 2; other site 869304001919 motif 3; other site 869304001920 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 869304001921 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 869304001922 teramer interface [polypeptide binding]; other site 869304001923 active site 869304001924 FMN binding site [chemical binding]; other site 869304001925 catalytic residues [active] 869304001926 Putative transcription activator [Transcription]; Region: TenA; COG0819 869304001927 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 869304001928 substrate binding site [chemical binding]; other site 869304001929 multimerization interface [polypeptide binding]; other site 869304001930 ATP binding site [chemical binding]; other site 869304001931 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 869304001932 thiamine phosphate binding site [chemical binding]; other site 869304001933 active site 869304001934 pyrophosphate binding site [ion binding]; other site 869304001935 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 869304001936 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869304001937 Walker A/P-loop; other site 869304001938 ATP binding site [chemical binding]; other site 869304001939 ABC transporter; Region: ABC_tran; pfam00005 869304001940 Q-loop/lid; other site 869304001941 ABC transporter signature motif; other site 869304001942 Walker B; other site 869304001943 D-loop; other site 869304001944 H-loop/switch region; other site 869304001945 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304001946 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 869304001947 Walker A/P-loop; other site 869304001948 ATP binding site [chemical binding]; other site 869304001949 Q-loop/lid; other site 869304001950 ABC transporter signature motif; other site 869304001951 Walker B; other site 869304001952 D-loop; other site 869304001953 H-loop/switch region; other site 869304001954 Putative transcription activator [Transcription]; Region: TenA; COG0819 869304001955 Predicted membrane protein [Function unknown]; Region: COG4732 869304001956 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 869304001957 substrate binding site [chemical binding]; other site 869304001958 multimerization interface [polypeptide binding]; other site 869304001959 ATP binding site [chemical binding]; other site 869304001960 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 869304001961 thiamine phosphate binding site [chemical binding]; other site 869304001962 active site 869304001963 pyrophosphate binding site [ion binding]; other site 869304001964 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 869304001965 dimer interface [polypeptide binding]; other site 869304001966 substrate binding site [chemical binding]; other site 869304001967 ATP binding site [chemical binding]; other site 869304001968 Predicted transcriptional regulator [Transcription]; Region: COG3682 869304001969 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 869304001970 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 869304001971 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 869304001972 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 869304001973 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 869304001974 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869304001975 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869304001976 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 869304001977 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 869304001978 PYR/PP interface [polypeptide binding]; other site 869304001979 dimer interface [polypeptide binding]; other site 869304001980 tetramer interface [polypeptide binding]; other site 869304001981 TPP binding site [chemical binding]; other site 869304001982 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 869304001983 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 869304001984 TPP-binding site [chemical binding]; other site 869304001985 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869304001986 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 869304001987 active site 869304001990 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 869304001991 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 869304001992 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 869304001994 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 869304001995 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 869304001996 dimer interface [polypeptide binding]; other site 869304001997 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 869304001998 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 869304001999 putative active site [active] 869304002000 nucleotide binding site [chemical binding]; other site 869304002001 nudix motif; other site 869304002002 putative metal binding site [ion binding]; other site 869304002003 HI0933-like protein; Region: HI0933_like; pfam03486 869304002004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 869304002005 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869304002006 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869304002007 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869304002008 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 869304002009 catalytic motif [active] 869304002010 Zn binding site [ion binding]; other site 869304002011 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304002012 active site 869304002013 Clp protease; Region: CLP_protease; pfam00574 869304002014 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 869304002015 oligomer interface [polypeptide binding]; other site 869304002016 active site residues [active] 869304002017 hypothetical protein; Provisional; Region: PRK02302 869304002018 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 869304002019 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 869304002020 putative ligand binding site [chemical binding]; other site 869304002021 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869304002022 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 869304002023 TM-ABC transporter signature motif; other site 869304002024 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 869304002025 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 869304002026 TM-ABC transporter signature motif; other site 869304002027 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 869304002028 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 869304002029 Walker A/P-loop; other site 869304002030 ATP binding site [chemical binding]; other site 869304002031 Q-loop/lid; other site 869304002032 ABC transporter signature motif; other site 869304002033 Walker B; other site 869304002034 D-loop; other site 869304002035 H-loop/switch region; other site 869304002036 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 869304002037 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 869304002038 Walker A/P-loop; other site 869304002039 ATP binding site [chemical binding]; other site 869304002040 Q-loop/lid; other site 869304002041 ABC transporter signature motif; other site 869304002042 Walker B; other site 869304002043 D-loop; other site 869304002044 H-loop/switch region; other site 869304002045 FOG: CBS domain [General function prediction only]; Region: COG0517 869304002046 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 869304002047 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 869304002048 peptide chain release factor 2; Validated; Region: prfB; PRK00578 869304002049 PCRF domain; Region: PCRF; pfam03462 869304002050 RF-1 domain; Region: RF-1; pfam00472 869304002051 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 869304002052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304002053 Walker A/P-loop; other site 869304002054 ATP binding site [chemical binding]; other site 869304002055 Q-loop/lid; other site 869304002056 ABC transporter signature motif; other site 869304002057 Walker B; other site 869304002058 D-loop; other site 869304002059 H-loop/switch region; other site 869304002060 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 869304002061 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 869304002062 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869304002063 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 869304002064 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 869304002065 active site turn [active] 869304002066 phosphorylation site [posttranslational modification] 869304002067 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 869304002068 HPr interaction site; other site 869304002069 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869304002070 active site 869304002071 phosphorylation site [posttranslational modification] 869304002072 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 869304002073 putative catalytic site [active] 869304002074 putative metal binding site [ion binding]; other site 869304002075 putative phosphate binding site [ion binding]; other site 869304002076 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 869304002077 DEAD-like helicases superfamily; Region: DEXDc; smart00487 869304002078 ATP binding site [chemical binding]; other site 869304002079 Mg++ binding site [ion binding]; other site 869304002080 motif III; other site 869304002081 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 869304002082 nucleotide binding region [chemical binding]; other site 869304002083 ATP-binding site [chemical binding]; other site 869304002084 S-adenosylmethionine synthetase; Validated; Region: PRK05250 869304002085 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 869304002086 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 869304002087 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 869304002088 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 869304002089 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 869304002090 active site 869304002091 FMN binding site [chemical binding]; other site 869304002092 substrate binding site [chemical binding]; other site 869304002093 catalytic residues [active] 869304002094 homodimer interface [polypeptide binding]; other site 869304002095 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 869304002096 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 869304002097 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 869304002098 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 869304002099 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 869304002100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 869304002101 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 869304002102 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 869304002103 FeS/SAM binding site; other site 869304002104 VanZ like family; Region: VanZ; pfam04892 869304002105 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869304002106 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304002107 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304002108 ABC transporter; Region: ABC_tran_2; pfam12848 869304002109 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304002110 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 869304002111 active site 869304002112 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 869304002113 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 869304002114 KH domain; Region: KH_4; pfam13083 869304002115 G-X-X-G motif; other site 869304002116 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 869304002117 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 869304002118 RimM N-terminal domain; Region: RimM; pfam01782 869304002119 PRC-barrel domain; Region: PRC; pfam05239 869304002120 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 869304002121 ATP cone domain; Region: ATP-cone; pfam03477 869304002122 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 869304002123 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 869304002124 glutathione reductase; Validated; Region: PRK06116 869304002125 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869304002126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869304002127 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869304002128 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 869304002129 HlyD family secretion protein; Region: HlyD_3; pfam13437 869304002130 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304002131 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304002132 Walker A/P-loop; other site 869304002133 ATP binding site [chemical binding]; other site 869304002134 Q-loop/lid; other site 869304002135 ABC transporter signature motif; other site 869304002136 Walker B; other site 869304002137 D-loop; other site 869304002138 H-loop/switch region; other site 869304002139 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 869304002140 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869304002141 FtsX-like permease family; Region: FtsX; pfam02687 869304002142 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 869304002143 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 869304002144 active site 869304002145 HIGH motif; other site 869304002146 KMSKS motif; other site 869304002147 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 869304002148 tRNA binding surface [nucleotide binding]; other site 869304002149 anticodon binding site; other site 869304002150 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 869304002151 dimer interface [polypeptide binding]; other site 869304002152 putative tRNA-binding site [nucleotide binding]; other site 869304002153 Predicted transcriptional regulators [Transcription]; Region: COG1695 869304002154 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 869304002155 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 869304002156 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 869304002157 active site 869304002158 catalytic tetrad [active] 869304002159 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 869304002160 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 869304002161 classical (c) SDRs; Region: SDR_c; cd05233 869304002162 NAD(P) binding site [chemical binding]; other site 869304002163 active site 869304002164 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 869304002165 nudix motif; other site 869304002166 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 869304002167 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 869304002168 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 869304002169 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 869304002170 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 869304002171 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 869304002172 Zn binding site [ion binding]; other site 869304002173 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304002174 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 869304002175 active site 869304002176 phosphorylation site [posttranslational modification] 869304002177 intermolecular recognition site; other site 869304002178 dimerization interface [polypeptide binding]; other site 869304002179 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 869304002180 DNA binding site [nucleotide binding] 869304002181 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869304002182 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 869304002183 dimer interface [polypeptide binding]; other site 869304002184 phosphorylation site [posttranslational modification] 869304002185 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 869304002186 ATP binding site [chemical binding]; other site 869304002187 Mg2+ binding site [ion binding]; other site 869304002188 G-X-G motif; other site 869304002189 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 869304002190 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 869304002191 Peptidase family U32; Region: Peptidase_U32; pfam01136 869304002192 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 869304002193 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869304002194 active site 869304002195 catalytic site [active] 869304002196 substrate binding site [chemical binding]; other site 869304002197 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 869304002198 ATP binding site [chemical binding]; other site 869304002199 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 869304002200 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 869304002201 DJ-1 family protein; Region: not_thiJ; TIGR01383 869304002202 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 869304002203 conserved cys residue [active] 869304002204 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 869304002205 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 869304002206 motif II; other site 869304002207 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 869304002208 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 869304002209 Mg2+ binding site [ion binding]; other site 869304002210 G-X-G motif; other site 869304002211 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 869304002212 anchoring element; other site 869304002213 dimer interface [polypeptide binding]; other site 869304002214 ATP binding site [chemical binding]; other site 869304002215 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 869304002216 active site 869304002217 putative metal-binding site [ion binding]; other site 869304002218 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 869304002219 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 869304002221 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 869304002222 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 869304002223 nudix motif; other site 869304002225 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 869304002226 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 869304002227 Walker A motif; other site 869304002228 ATP binding site [chemical binding]; other site 869304002229 Walker B motif; other site 869304002230 arginine finger; other site 869304002231 UvrB/uvrC motif; Region: UVR; pfam02151 869304002232 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 869304002233 Walker A motif; other site 869304002234 ATP binding site [chemical binding]; other site 869304002235 Walker B motif; other site 869304002236 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869304002237 This gene appears to have been derived through a fusion of permease and ATP-binding subunits of a glutamine-transporting ABC transporter 869304002238 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 869304002239 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 869304002240 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 869304002241 homodimer interface [polypeptide binding]; other site 869304002242 NADP binding site [chemical binding]; other site 869304002243 substrate binding site [chemical binding]; other site 869304002244 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 869304002245 putative substrate binding site [chemical binding]; other site 869304002246 putative ATP binding site [chemical binding]; other site 869304002247 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 869304002248 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869304002249 active site 869304002250 dimer interface [polypeptide binding]; other site 869304002251 phosphopentomutase; Provisional; Region: PRK05362 869304002252 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 869304002253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 869304002254 purine nucleoside phosphorylase; Provisional; Region: PRK08202 869304002256 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 869304002257 topology modulation protein; Provisional; Region: PRK07261 869304002258 AAA domain; Region: AAA_17; pfam13207 869304002259 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 869304002260 pantothenate kinase; Provisional; Region: PRK05439 869304002261 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 869304002262 ATP-binding site [chemical binding]; other site 869304002263 CoA-binding site [chemical binding]; other site 869304002264 Mg2+-binding site [ion binding]; other site 869304002265 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869304002266 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 869304002267 S-adenosylmethionine binding site [chemical binding]; other site 869304002268 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 869304002269 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 869304002270 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 869304002271 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 869304002272 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 869304002273 intersubunit interface [polypeptide binding]; other site 869304002274 active site 869304002275 catalytic residue [active] 869304002276 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 869304002277 active site 869304002278 catalytic motif [active] 869304002279 Zn binding site [ion binding]; other site 869304002280 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 869304002281 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 869304002282 ligand binding site [chemical binding]; other site 869304002283 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 869304002284 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 869304002285 Walker A/P-loop; other site 869304002286 ATP binding site [chemical binding]; other site 869304002287 Q-loop/lid; other site 869304002288 ABC transporter signature motif; other site 869304002289 Walker B; other site 869304002290 D-loop; other site 869304002291 H-loop/switch region; other site 869304002292 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 869304002293 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869304002294 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 869304002295 TM-ABC transporter signature motif; other site 869304002296 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869304002297 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 869304002298 TM-ABC transporter signature motif; other site 869304002301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 869304002302 Transposase; Region: DDE_Tnp_ISL3; pfam01610 869304002303 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 869304002304 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 869304002305 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 869304002306 Mg2+ binding site [ion binding]; other site 869304002307 G-X-G motif; other site 869304002308 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 869304002309 anchoring element; other site 869304002310 dimer interface [polypeptide binding]; other site 869304002311 ATP binding site [chemical binding]; other site 869304002312 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 869304002313 active site 869304002314 putative metal-binding site [ion binding]; other site 869304002315 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 869304002316 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 869304002317 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 869304002318 CAP-like domain; other site 869304002319 active site 869304002320 primary dimer interface [polypeptide binding]; other site 869304002321 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869304002322 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 869304002323 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 869304002324 homodimer interface [polypeptide binding]; other site 869304002325 substrate-cofactor binding pocket; other site 869304002326 catalytic residue [active] 869304002327 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 869304002328 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 869304002329 Predicted membrane protein [Function unknown]; Region: COG3819 869304002330 Predicted membrane protein [Function unknown]; Region: COG3817 869304002331 Protein of unknown function (DUF979); Region: DUF979; pfam06166 869304002332 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 869304002333 putative substrate binding pocket [chemical binding]; other site 869304002334 AC domain interface; other site 869304002335 catalytic triad [active] 869304002336 AB domain interface; other site 869304002337 interchain disulfide; other site 869304002338 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 869304002339 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 869304002340 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 869304002341 RNA binding site [nucleotide binding]; other site 869304002342 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 869304002343 RNA binding site [nucleotide binding]; other site 869304002344 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 869304002345 RNA binding site [nucleotide binding]; other site 869304002346 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 869304002347 RNA binding site [nucleotide binding]; other site 869304002349 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 869304002350 GAF domain; Region: GAF_2; pfam13185 869304002351 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 869304002352 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 869304002353 Walker A motif; other site 869304002354 ATP binding site [chemical binding]; other site 869304002355 Walker B motif; other site 869304002356 arginine finger; other site 869304002357 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 869304002358 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 869304002359 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 869304002360 Walker A/P-loop; other site 869304002361 ATP binding site [chemical binding]; other site 869304002362 Q-loop/lid; other site 869304002363 ABC transporter signature motif; other site 869304002364 Walker B; other site 869304002365 D-loop; other site 869304002366 H-loop/switch region; other site 869304002367 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 869304002368 FeS assembly protein SufD; Region: sufD; TIGR01981 869304002369 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 869304002370 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 869304002371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869304002372 catalytic residue [active] 869304002373 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 869304002374 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 869304002375 trimerization site [polypeptide binding]; other site 869304002376 active site 869304002377 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 869304002378 FeS assembly protein SufB; Region: sufB; TIGR01980 869304002379 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 869304002380 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 869304002381 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 869304002382 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 869304002383 Domain of unknown function DUF20; Region: UPF0118; pfam01594 869304002384 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869304002385 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 869304002386 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869304002387 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 869304002388 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 869304002389 putative substrate binding site [chemical binding]; other site 869304002390 putative ATP binding site [chemical binding]; other site 869304002391 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 869304002392 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 869304002393 active site 869304002394 phosphorylation site [posttranslational modification] 869304002395 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 869304002396 active site 869304002397 P-loop; other site 869304002398 phosphorylation site [posttranslational modification] 869304002399 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 869304002400 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 869304002401 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 869304002402 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 869304002403 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 869304002404 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 869304002405 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 869304002406 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869304002407 catalytic residue [active] 869304002408 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 869304002409 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 869304002410 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 869304002411 Ligand Binding Site [chemical binding]; other site 869304002412 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 869304002413 Putative esterase; Region: Esterase; pfam00756 869304002414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 869304002415 Putative esterase; Region: Esterase; pfam00756 869304002417 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 869304002418 HsdM N-terminal domain; Region: HsdM_N; pfam12161 869304002419 Methyltransferase domain; Region: Methyltransf_26; pfam13659 869304002420 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 869304002421 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 869304002422 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 869304002423 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 869304002424 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 869304002425 active site 869304002426 catalytic residues [active] 869304002427 DNA binding site [nucleotide binding] 869304002428 Int/Topo IB signature motif; other site 869304002429 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 869304002430 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869304002432 Arginine repressor [Transcription]; Region: ArgR; COG1438 869304002433 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869304002434 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869304002435 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 869304002436 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 869304002437 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 869304002438 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 869304002439 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 869304002440 active site 869304002441 PHP Thumb interface [polypeptide binding]; other site 869304002442 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 869304002443 generic binding surface II; other site 869304002444 generic binding surface I; other site 869304002445 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 869304002446 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 869304002447 active site 869304002448 ADP/pyrophosphate binding site [chemical binding]; other site 869304002449 dimerization interface [polypeptide binding]; other site 869304002450 allosteric effector site; other site 869304002451 fructose-1,6-bisphosphate binding site; other site 869304002452 pyruvate kinase; Provisional; Region: PRK05826 869304002453 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 869304002454 domain interfaces; other site 869304002455 active site 869304002457 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 869304002458 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 869304002459 Predicted membrane protein [Function unknown]; Region: COG3689 869304002460 Predicted permeases [General function prediction only]; Region: COG0701 869304002461 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 869304002462 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 869304002463 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 869304002464 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 869304002465 RNA binding site [nucleotide binding]; other site 869304002466 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 869304002467 hypothetical protein; Provisional; Region: PRK04351 869304002468 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 869304002469 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304002470 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304002471 Walker A/P-loop; other site 869304002472 ATP binding site [chemical binding]; other site 869304002473 Q-loop/lid; other site 869304002474 ABC transporter signature motif; other site 869304002475 Walker B; other site 869304002476 D-loop; other site 869304002477 H-loop/switch region; other site 869304002478 FtsX-like permease family; Region: FtsX; pfam02687 869304002479 disrupted by IS insertion 869304002480 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 869304002481 Helix-turn-helix domain; Region: HTH_38; pfam13936 869304002482 Integrase core domain; Region: rve; pfam00665 869304002483 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 869304002484 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 869304002485 homodimer interface [polypeptide binding]; other site 869304002486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304002487 catalytic residue [active] 869304002488 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 869304002489 Transposase; Region: DEDD_Tnp_IS110; pfam01548 869304002490 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 869304002491 spermidine synthase; Provisional; Region: PRK00811 869304002492 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 869304002493 S-adenosylmethionine binding site [chemical binding]; other site 869304002494 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 869304002495 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 869304002496 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 869304002497 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 869304002498 dimer interface [polypeptide binding]; other site 869304002499 active site 869304002500 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869304002501 catalytic residues [active] 869304002502 substrate binding site [chemical binding]; other site 869304002503 agmatine deiminase; Provisional; Region: PRK13551 869304002504 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 869304002505 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 869304002506 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 869304002507 putative active site; other site 869304002508 catalytic triad [active] 869304002509 putative dimer interface [polypeptide binding]; other site 869304002510 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 869304002511 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869304002512 active site 869304002513 motif I; other site 869304002514 motif II; other site 869304002515 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 869304002516 CAAX protease self-immunity; Region: Abi; pfam02517 869304002517 Transcriptional regulator [Transcription]; Region: LysR; COG0583 869304002518 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 869304002519 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 869304002520 dimerization interface [polypeptide binding]; other site 869304002521 lipoprotein signal peptidase; Provisional; Region: PRK14797 869304002522 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869304002523 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 869304002524 RNA binding surface [nucleotide binding]; other site 869304002525 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869304002526 active site 869304002527 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 869304002528 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869304002529 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304002530 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 869304002531 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 869304002532 nucleotide binding site [chemical binding]; other site 869304002533 homotetrameric interface [polypeptide binding]; other site 869304002534 putative phosphate binding site [ion binding]; other site 869304002535 putative allosteric binding site; other site 869304002536 PUA domain; Region: PUA; pfam01472 869304002537 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 869304002538 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 869304002539 putative catalytic cysteine [active] 869304002540 pyrroline-5-carboxylate reductase; Region: PLN02688 869304002541 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 869304002542 thymidylate kinase; Validated; Region: tmk; PRK00698 869304002543 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 869304002544 TMP-binding site; other site 869304002545 ATP-binding site [chemical binding]; other site 869304002546 DNA polymerase III subunit delta'; Validated; Region: PRK07276 869304002547 DNA polymerase III subunit delta'; Validated; Region: PRK08485 869304002548 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 869304002549 Predicted methyltransferases [General function prediction only]; Region: COG0313 869304002550 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 869304002551 putative SAM binding site [chemical binding]; other site 869304002552 putative homodimer interface [polypeptide binding]; other site 869304002553 Uncharacterized conserved protein [Function unknown]; Region: COG4283 869304002554 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 869304002557 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 869304002558 Glucose inhibited division protein A; Region: GIDA; pfam01134 869304002559 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 869304002560 putative nucleotide binding site [chemical binding]; other site 869304002561 uridine monophosphate binding site [chemical binding]; other site 869304002562 homohexameric interface [polypeptide binding]; other site 869304002563 ribosome recycling factor; Reviewed; Region: frr; PRK00083 869304002564 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 869304002565 hinge region; other site 869304002566 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 869304002567 S1 domain; Region: S1_2; pfam13509 869304002568 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 869304002569 hypothetical protein; Provisional; Region: PRK13672 869304002571 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304002572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304002573 Coenzyme A binding pocket [chemical binding]; other site 869304002576 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304002577 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869304002578 SLBB domain; Region: SLBB; pfam10531 869304002579 comEA protein; Region: comE; TIGR01259 869304002580 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 869304002581 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 869304002582 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 869304002583 Competence protein; Region: Competence; pfam03772 869304002584 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 869304002585 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869304002586 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869304002587 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869304002588 Walker A/P-loop; other site 869304002589 ATP binding site [chemical binding]; other site 869304002590 Q-loop/lid; other site 869304002591 ABC transporter signature motif; other site 869304002592 Walker B; other site 869304002593 D-loop; other site 869304002594 H-loop/switch region; other site 869304002595 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 869304002596 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 869304002597 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 869304002598 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 869304002599 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 869304002600 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 869304002601 23S rRNA binding site [nucleotide binding]; other site 869304002602 L21 binding site [polypeptide binding]; other site 869304002603 L13 binding site [polypeptide binding]; other site 869304002604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869304002605 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 869304002606 dimer interface [polypeptide binding]; other site 869304002607 active site 869304002608 metal binding site [ion binding]; metal-binding site 869304002609 glutathione binding site [chemical binding]; other site 869304002610 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 869304002611 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 869304002612 FAD binding pocket [chemical binding]; other site 869304002613 FAD binding motif [chemical binding]; other site 869304002614 phosphate binding motif [ion binding]; other site 869304002615 beta-alpha-beta structure motif; other site 869304002616 NAD binding pocket [chemical binding]; other site 869304002617 Iron coordination center [ion binding]; other site 869304002618 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 869304002619 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 869304002620 heterodimer interface [polypeptide binding]; other site 869304002621 active site 869304002622 FMN binding site [chemical binding]; other site 869304002623 homodimer interface [polypeptide binding]; other site 869304002624 substrate binding site [chemical binding]; other site 869304002625 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304002626 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 869304002627 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 869304002628 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 869304002629 Domain of unknown function (DUF814); Region: DUF814; pfam05670 869304002630 metal-binding heat shock protein; Provisional; Region: PRK00016 869304002631 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 869304002632 GTPase Era; Reviewed; Region: era; PRK00089 869304002633 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 869304002634 G1 box; other site 869304002635 GTP/Mg2+ binding site [chemical binding]; other site 869304002636 Switch I region; other site 869304002637 G2 box; other site 869304002638 Switch II region; other site 869304002639 G3 box; other site 869304002640 G4 box; other site 869304002641 G5 box; other site 869304002642 KH domain; Region: KH_2; pfam07650 869304002643 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 869304002644 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 869304002645 DNA binding site [nucleotide binding] 869304002646 catalytic residue [active] 869304002647 H2TH interface [polypeptide binding]; other site 869304002648 putative catalytic residues [active] 869304002649 turnover-facilitating residue; other site 869304002650 intercalation triad [nucleotide binding]; other site 869304002651 8OG recognition residue [nucleotide binding]; other site 869304002652 putative reading head residues; other site 869304002653 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 869304002654 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 869304002655 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 869304002656 dephospho-CoA kinase; Region: TIGR00152 869304002657 CoA-binding site [chemical binding]; other site 869304002658 ATP-binding [chemical binding]; other site 869304002659 drug efflux system protein MdtG; Provisional; Region: PRK09874 869304002660 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 869304002661 putative substrate translocation pore; other site 869304002662 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 869304002663 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 869304002664 ribonuclease R; Region: RNase_R; TIGR02063 869304002665 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 869304002666 RNB domain; Region: RNB; pfam00773 869304002667 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 869304002668 RNA binding site [nucleotide binding]; other site 869304002669 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 869304002670 SmpB-tmRNA interface; other site 869304002671 tellurite resistance protein TehB; Provisional; Region: PRK12335 869304002672 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 869304002673 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 869304002674 S-adenosylmethionine binding site [chemical binding]; other site 869304002675 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 869304002676 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 869304002677 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 869304002678 active site 869304002679 Zn binding site [ion binding]; other site 869304002680 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 869304002681 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 869304002682 S-adenosylmethionine binding site [chemical binding]; other site 869304002683 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 869304002684 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 869304002688 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 869304002689 catalytic core [active] 869304002690 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 869304002691 putative deacylase active site [active] 869304002692 Predicted membrane protein [Function unknown]; Region: COG2035 869304002693 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 869304002694 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 869304002695 active site 869304002696 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 869304002697 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 869304002698 Substrate binding site; other site 869304002699 Mg++ binding site; other site 869304002700 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 869304002701 active site 869304002702 substrate binding site [chemical binding]; other site 869304002703 CoA binding site [chemical binding]; other site 869304002704 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 869304002705 dimer interface [polypeptide binding]; other site 869304002706 ADP-ribose binding site [chemical binding]; other site 869304002707 active site 869304002708 nudix motif; other site 869304002709 metal binding site [ion binding]; metal-binding site 869304002710 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 869304002711 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 869304002712 MarR family; Region: MarR_2; cl17246 869304002713 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 869304002714 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869304002715 active site 869304002716 catalytic site [active] 869304002717 substrate binding site [chemical binding]; other site 869304002718 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 869304002719 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 869304002720 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 869304002721 putative active site [active] 869304002722 catalytic site [active] 869304002723 putative metal binding site [ion binding]; other site 869304002725 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cl17045 869304002726 dimer interface [polypeptide binding]; other site 869304002727 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 869304002728 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 869304002729 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 869304002730 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869304002731 catalytic residues [active] 869304002732 amino acid transporter; Region: 2A0306; TIGR00909 869304002733 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 869304002734 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869304002735 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 869304002736 metal binding site [ion binding]; metal-binding site 869304002737 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869304002738 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304002739 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304002740 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304002741 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869304002742 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304002743 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304002744 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304002745 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304002749 peptidase T; Region: peptidase-T; TIGR01882 869304002750 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 869304002751 metal binding site [ion binding]; metal-binding site 869304002752 dimer interface [polypeptide binding]; other site 869304002753 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 869304002754 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 869304002755 C-terminal domain interface [polypeptide binding]; other site 869304002756 active site 869304002757 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 869304002758 active site 869304002759 N-terminal domain interface [polypeptide binding]; other site 869304002760 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 869304002761 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 869304002762 Predicted membrane protein [Function unknown]; Region: COG2246 869304002763 GtrA-like protein; Region: GtrA; pfam04138 869304002764 Predicted membrane protein [Function unknown]; Region: COG4708 869304002765 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 869304002766 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 869304002767 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 869304002768 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 869304002769 dimer interface [polypeptide binding]; other site 869304002770 active site 869304002771 catalytic residue [active] 869304002772 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 869304002773 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 869304002774 trmE is a tRNA modification GTPase; Region: trmE; cd04164 869304002775 G1 box; other site 869304002776 GTP/Mg2+ binding site [chemical binding]; other site 869304002777 Switch I region; other site 869304002778 G2 box; other site 869304002779 Switch II region; other site 869304002780 G3 box; other site 869304002781 G4 box; other site 869304002782 G5 box; other site 869304002783 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 869304002784 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 869304002785 active site 1 [active] 869304002786 dimer interface [polypeptide binding]; other site 869304002787 hexamer interface [polypeptide binding]; other site 869304002788 active site 2 [active] 869304002789 thymidine kinase; Provisional; Region: PRK04296 869304002790 peptide chain release factor 1; Validated; Region: prfA; PRK00591 869304002791 This domain is found in peptide chain release factors; Region: PCRF; smart00937 869304002792 RF-1 domain; Region: RF-1; pfam00472 869304002793 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 869304002794 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 869304002795 S-adenosylmethionine binding site [chemical binding]; other site 869304002796 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 869304002797 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869304002798 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304002799 Coenzyme A binding pocket [chemical binding]; other site 869304002800 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 869304002801 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 869304002802 dimer interface [polypeptide binding]; other site 869304002803 active site 869304002804 glycine-pyridoxal phosphate binding site [chemical binding]; other site 869304002805 folate binding site [chemical binding]; other site 869304002806 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 869304002807 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 869304002808 Lysozyme-like; Region: Lysozyme_like; pfam13702 869304002809 Predicted secreted protein [Function unknown]; Region: COG4086 869304002810 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 869304002811 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 869304002812 TRAM domain; Region: TRAM; cl01282 869304002813 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 869304002814 S-adenosylmethionine binding site [chemical binding]; other site 869304002815 Predicted transcriptional regulator [Transcription]; Region: COG3655 869304002816 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 869304002817 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 869304002818 siderophore binding site; other site 869304002819 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 869304002820 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 869304002821 ABC-ATPase subunit interface; other site 869304002822 dimer interface [polypeptide binding]; other site 869304002823 putative PBP binding regions; other site 869304002824 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 869304002825 ABC-ATPase subunit interface; other site 869304002826 dimer interface [polypeptide binding]; other site 869304002827 putative PBP binding regions; other site 869304002828 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 869304002829 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 869304002830 Walker A/P-loop; other site 869304002831 ATP binding site [chemical binding]; other site 869304002832 Q-loop/lid; other site 869304002833 ABC transporter signature motif; other site 869304002834 Walker B; other site 869304002835 D-loop; other site 869304002836 H-loop/switch region; other site 869304002838 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 869304002840 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 869304002841 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 869304002842 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 869304002843 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 869304002844 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 869304002845 homodimer interface [polypeptide binding]; other site 869304002846 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 869304002847 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 869304002848 active site 869304002849 homodimer interface [polypeptide binding]; other site 869304002850 catalytic site [active] 869304002851 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304002852 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 869304002853 non-specific DNA binding site [nucleotide binding]; other site 869304002854 salt bridge; other site 869304002855 sequence-specific DNA binding site [nucleotide binding]; other site 869304002856 Zeta toxin; Region: Zeta_toxin; pfam06414 869304002857 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 869304002858 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 869304002859 AAA domain; Region: AAA_21; pfam13304 869304002860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304002861 ABC transporter signature motif; other site 869304002862 Walker B; other site 869304002863 D-loop; other site 869304002864 H-loop/switch region; other site 869304002865 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 869304002867 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 869304002868 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 869304002869 ATP-grasp domain; Region: ATP-grasp_4; cl17255 869304002870 Enolase [Carbohydrate transport and metabolism]; Region: Eno; COG0148 869304002871 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 869304002872 metal binding site [ion binding]; metal-binding site 869304002873 substrate binding pocket [chemical binding]; other site 869304002874 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 869304002875 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 869304002876 homodimer interface [polypeptide binding]; other site 869304002877 substrate-cofactor binding pocket; other site 869304002878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304002879 catalytic residue [active] 869304002880 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 869304002881 TPP-binding site [chemical binding]; other site 869304002882 dimer interface [polypeptide binding]; other site 869304002883 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 869304002884 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 869304002885 PYR/PP interface [polypeptide binding]; other site 869304002886 dimer interface [polypeptide binding]; other site 869304002887 TPP binding site [chemical binding]; other site 869304002888 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869304002889 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 869304002890 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 869304002891 inhibitor-cofactor binding pocket; inhibition site 869304002892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304002893 catalytic residue [active] 869304002894 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 869304002895 active site 869304002896 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 869304002897 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cd03174 869304002898 active site 869304002899 catalytic residues [active] 869304002900 metal binding site [ion binding]; metal-binding site 869304002901 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 869304002902 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 869304002903 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 869304002904 tetramer interface [polypeptide binding]; other site 869304002905 active site 869304002906 Mg2+/Mn2+ binding site [ion binding]; other site 869304002907 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 869304002908 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 869304002909 PYR/PP interface [polypeptide binding]; other site 869304002910 dimer interface [polypeptide binding]; other site 869304002911 TPP binding site [chemical binding]; other site 869304002912 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 869304002913 TPP-binding site [chemical binding]; other site 869304002914 hypothetical protein; Validated; Region: PRK07080 869304002915 acyl carrier protein; Provisional; Region: PRK07081 869304002916 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 869304002917 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 869304002918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304002919 Walker A/P-loop; other site 869304002920 ATP binding site [chemical binding]; other site 869304002921 Q-loop/lid; other site 869304002922 ABC transporter signature motif; other site 869304002923 Walker B; other site 869304002924 D-loop; other site 869304002925 H-loop/switch region; other site 869304002926 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869304002927 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869304002928 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869304002931 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304002932 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 869304002933 non-specific DNA binding site [nucleotide binding]; other site 869304002934 salt bridge; other site 869304002935 sequence-specific DNA binding site [nucleotide binding]; other site 869304002937 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 869304002938 conserved cys residue [active] 869304002939 Phosphotransferase enzyme family; Region: APH; pfam01636 869304002940 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 869304002941 active site 869304002942 ATP binding site [chemical binding]; other site 869304002943 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 869304002944 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 869304002945 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 869304002946 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 869304002947 zinc binding site [ion binding]; other site 869304002948 putative ligand binding site [chemical binding]; other site 869304002949 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869304002950 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 869304002951 TM-ABC transporter signature motif; other site 869304002952 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 869304002953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304002954 Walker A/P-loop; other site 869304002955 ATP binding site [chemical binding]; other site 869304002956 Q-loop/lid; other site 869304002957 ABC transporter signature motif; other site 869304002958 Walker B; other site 869304002959 D-loop; other site 869304002960 H-loop/switch region; other site 869304002961 DNA primase; Validated; Region: dnaG; PRK05667 869304002962 CHC2 zinc finger; Region: zf-CHC2; pfam01807 869304002963 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 869304002964 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 869304002965 active site 869304002966 metal binding site [ion binding]; metal-binding site 869304002967 interdomain interaction site; other site 869304002968 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 869304002969 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 869304002970 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 869304002971 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 869304002972 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 869304002973 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 869304002974 DNA binding residues [nucleotide binding] 869304002975 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 869304002976 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869304002977 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 869304002978 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869304002979 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 869304002980 putative ADP-binding pocket [chemical binding]; other site 869304002981 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 869304002982 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 869304002983 GTPase CgtA; Reviewed; Region: obgE; PRK12297 869304002984 GTP1/OBG; Region: GTP1_OBG; pfam01018 869304002985 Obg GTPase; Region: Obg; cd01898 869304002986 G1 box; other site 869304002987 GTP/Mg2+ binding site [chemical binding]; other site 869304002988 Switch I region; other site 869304002989 G2 box; other site 869304002990 G3 box; other site 869304002991 Switch II region; other site 869304002992 G4 box; other site 869304002993 G5 box; other site 869304002994 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 869304002995 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 869304002996 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 869304002997 hinge; other site 869304002998 active site 869304002999 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304003000 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869304003001 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 869304003002 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304003003 DNA-binding site [nucleotide binding]; DNA binding site 869304003004 DRTGG domain; Region: DRTGG; pfam07085 869304003005 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 869304003006 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 869304003007 active site 2 [active] 869304003008 active site 1 [active] 869304003009 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 869304003010 active site 869304003012 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 869304003013 Part of AAA domain; Region: AAA_19; pfam13245 869304003014 Family description; Region: UvrD_C_2; pfam13538 869304003015 hypothetical protein; Reviewed; Region: PRK00024 869304003016 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 869304003017 MPN+ (JAMM) motif; other site 869304003018 Zinc-binding site [ion binding]; other site 869304003019 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 869304003020 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 869304003021 catalytic triad [active] 869304003022 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 869304003023 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 869304003024 CoA binding domain; Region: CoA_binding; pfam02629 869304003025 Putative amino acid metabolism; Region: DUF1831; pfam08866 869304003026 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 869304003027 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 869304003028 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869304003029 catalytic residue [active] 869304003030 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 869304003031 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 869304003032 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304003033 active site 869304003034 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 869304003035 putative active site [active] 869304003036 putative metal binding residues [ion binding]; other site 869304003037 signature motif; other site 869304003038 putative triphosphate binding site [ion binding]; other site 869304003039 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 869304003040 synthetase active site [active] 869304003041 NTP binding site [chemical binding]; other site 869304003042 metal binding site [ion binding]; metal-binding site 869304003043 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 869304003044 ATP-NAD kinase; Region: NAD_kinase; pfam01513 869304003045 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869304003046 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 869304003047 RNA binding surface [nucleotide binding]; other site 869304003048 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869304003049 active site 869304003050 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 869304003052 hypothetical protein; Validated; Region: PRK00153 869304003054 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 869304003055 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 869304003056 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 869304003057 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 869304003058 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 869304003059 active site 869304003060 Riboflavin kinase; Region: Flavokinase; smart00904 869304003061 Uncharacterized conserved protein [Function unknown]; Region: COG1284 869304003062 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869304003063 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869304003064 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 869304003065 EDD domain protein, DegV family; Region: DegV; TIGR00762 869304003066 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869304003067 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 869304003068 IHF dimer interface [polypeptide binding]; other site 869304003069 IHF - DNA interface [nucleotide binding]; other site 869304003070 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869304003071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304003072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304003073 ABC transporter; Region: ABC_tran_2; pfam12848 869304003074 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304003075 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 869304003076 non-specific DNA binding site [nucleotide binding]; other site 869304003077 salt bridge; other site 869304003078 sequence-specific DNA binding site [nucleotide binding]; other site 869304003079 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 869304003080 H+ Antiporter protein; Region: 2A0121; TIGR00900 869304003081 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 869304003082 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 869304003083 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 869304003084 nucleotide binding pocket [chemical binding]; other site 869304003085 K-X-D-G motif; other site 869304003086 catalytic site [active] 869304003087 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 869304003088 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 869304003089 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 869304003090 Dimer interface [polypeptide binding]; other site 869304003091 BRCT sequence motif; other site 869304003092 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 869304003093 pullulanase, type I; Region: pulA_typeI; TIGR02104 869304003094 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 869304003095 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 869304003096 Ca binding site [ion binding]; other site 869304003097 active site 869304003098 catalytic site [active] 869304003099 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 869304003100 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 869304003101 tetrameric interface [polypeptide binding]; other site 869304003102 activator binding site; other site 869304003103 NADP binding site [chemical binding]; other site 869304003104 substrate binding site [chemical binding]; other site 869304003105 catalytic residues [active] 869304003106 glycogen branching enzyme; Provisional; Region: PRK12313 869304003107 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 869304003108 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 869304003109 active site 869304003110 catalytic site [active] 869304003111 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 869304003113 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 869304003114 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 869304003115 active site 869304003116 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 869304003117 dimer interface [polypeptide binding]; other site 869304003118 N-terminal domain interface [polypeptide binding]; other site 869304003119 sulfate 1 binding site; other site 869304003120 glycogen synthase; Provisional; Region: glgA; PRK00654 869304003121 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 869304003122 ADP-binding pocket [chemical binding]; other site 869304003123 homodimer interface [polypeptide binding]; other site 869304003126 Uncharacterized conserved protein [Function unknown]; Region: COG5506 869304003127 enolase; Provisional; Region: eno; PRK00077 869304003128 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 869304003129 dimer interface [polypeptide binding]; other site 869304003130 metal binding site [ion binding]; metal-binding site 869304003131 substrate binding pocket [chemical binding]; other site 869304003134 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 869304003135 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 869304003136 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 869304003137 Part of AAA domain; Region: AAA_19; pfam13245 869304003138 Family description; Region: UvrD_C_2; pfam13538 869304003139 Family description; Region: UvrD_C_2; pfam13538 869304003140 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 869304003141 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869304003142 G5 domain; Region: G5; pfam07501 869304003143 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 869304003144 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 869304003145 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 869304003146 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 869304003147 GTP/Mg2+ binding site [chemical binding]; other site 869304003148 G4 box; other site 869304003149 G5 box; other site 869304003150 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 869304003151 G1 box; other site 869304003152 G1 box; other site 869304003153 GTP/Mg2+ binding site [chemical binding]; other site 869304003154 Switch I region; other site 869304003155 G2 box; other site 869304003156 G2 box; other site 869304003157 G3 box; other site 869304003158 G3 box; other site 869304003159 Switch II region; other site 869304003160 Switch II region; other site 869304003161 G5 box; other site 869304003162 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 869304003163 RNA/DNA hybrid binding site [nucleotide binding]; other site 869304003164 active site 869304003165 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 869304003166 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 869304003167 Cl- selectivity filter; other site 869304003168 Cl- binding residues [ion binding]; other site 869304003169 pore gating glutamate residue; other site 869304003170 dimer interface [polypeptide binding]; other site 869304003171 H+/Cl- coupling transport residue; other site 869304003172 TrkA-C domain; Region: TrkA_C; pfam02080 869304003173 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 869304003174 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 869304003175 active site 869304003176 DNA binding site [nucleotide binding] 869304003177 Int/Topo IB signature motif; other site 869304003178 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 869304003179 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 869304003180 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 869304003181 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 869304003182 E3 interaction surface; other site 869304003183 lipoyl attachment site [posttranslational modification]; other site 869304003184 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 869304003185 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 869304003186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869304003187 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869304003188 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 869304003189 e3 binding domain; Region: E3_binding; pfam02817 869304003190 e3 binding domain; Region: E3_binding; pfam02817 869304003191 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 869304003192 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 869304003193 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 869304003194 alpha subunit interface [polypeptide binding]; other site 869304003195 TPP binding site [chemical binding]; other site 869304003196 heterodimer interface [polypeptide binding]; other site 869304003197 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869304003198 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 869304003199 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 869304003200 tetramer interface [polypeptide binding]; other site 869304003201 TPP-binding site [chemical binding]; other site 869304003202 heterodimer interface [polypeptide binding]; other site 869304003203 phosphorylation loop region [posttranslational modification] 869304003204 multidrug efflux protein; Reviewed; Region: PRK01766 869304003205 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 869304003206 cation binding site [ion binding]; other site 869304003207 dihydroorotase; Validated; Region: pyrC; PRK09357 869304003208 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 869304003209 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 869304003210 active site 869304003211 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 869304003212 putative active site [active] 869304003213 nucleotide binding site [chemical binding]; other site 869304003214 nudix motif; other site 869304003215 putative metal binding site [ion binding]; other site 869304003216 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 869304003217 ligand binding site [chemical binding]; other site 869304003218 active site 869304003219 UGI interface [polypeptide binding]; other site 869304003220 catalytic site [active] 869304003221 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 869304003222 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 869304003223 motif II; other site 869304003224 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 869304003225 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869304003226 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304003227 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304003228 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869304003229 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 869304003230 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 869304003231 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 869304003232 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 869304003233 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 869304003234 dimerization domain swap beta strand [polypeptide binding]; other site 869304003235 regulatory protein interface [polypeptide binding]; other site 869304003236 active site 869304003237 regulatory phosphorylation site [posttranslational modification]; other site 869304003238 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 869304003239 catalytic residues [active] 869304003240 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 869304003241 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 869304003242 Class I ribonucleotide reductase; Region: RNR_I; cd01679 869304003243 active site 869304003244 dimer interface [polypeptide binding]; other site 869304003245 catalytic residues [active] 869304003246 effector binding site; other site 869304003247 R2 peptide binding site; other site 869304003248 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 869304003249 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 869304003250 dimer interface [polypeptide binding]; other site 869304003251 putative radical transfer pathway; other site 869304003252 diiron center [ion binding]; other site 869304003253 tyrosyl radical; other site 869304003254 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869304003255 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 869304003256 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869304003257 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 869304003258 beta-galactosidase; Region: BGL; TIGR03356 869304003259 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 869304003260 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869304003261 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 869304003262 active site 869304003263 P-loop; other site 869304003264 phosphorylation site [posttranslational modification] 869304003265 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 869304003266 methionine cluster; other site 869304003267 active site 869304003268 phosphorylation site [posttranslational modification] 869304003269 metal binding site [ion binding]; metal-binding site 869304003270 CAT RNA binding domain; Region: CAT_RBD; smart01061 869304003271 transcriptional antiterminator BglG; Provisional; Region: PRK09772 869304003272 PRD domain; Region: PRD; pfam00874 869304003273 PRD domain; Region: PRD; pfam00874 869304003274 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 869304003275 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 869304003276 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 869304003277 putative substrate binding site [chemical binding]; other site 869304003278 putative ATP binding site [chemical binding]; other site 869304003279 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 869304003280 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 869304003281 N-terminal truncation due to IS insertion 869304003283 C-terminal truncation due to IS insertion 869304003284 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 869304003285 active site 869304003286 phosphorylation site [posttranslational modification] 869304003287 GTP-binding protein LepA; Provisional; Region: PRK05433 869304003288 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 869304003289 G1 box; other site 869304003290 putative GEF interaction site [polypeptide binding]; other site 869304003291 GTP/Mg2+ binding site [chemical binding]; other site 869304003292 Switch I region; other site 869304003293 G2 box; other site 869304003294 G3 box; other site 869304003295 Switch II region; other site 869304003296 G4 box; other site 869304003297 G5 box; other site 869304003298 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 869304003299 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 869304003300 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 869304003301 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 869304003302 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 869304003303 active site 869304003304 metal binding site [ion binding]; metal-binding site 869304003305 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 869304003306 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 869304003307 Walker A/P-loop; other site 869304003308 ATP binding site [chemical binding]; other site 869304003309 Q-loop/lid; other site 869304003310 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 869304003311 ABC transporter signature motif; other site 869304003312 Walker B; other site 869304003313 D-loop; other site 869304003314 H-loop/switch region; other site 869304003315 Arginine repressor [Transcription]; Region: ArgR; COG1438 869304003316 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869304003317 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869304003318 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 869304003319 S4 RNA-binding domain; Region: S4; smart00363 869304003320 RNA binding surface [nucleotide binding]; other site 869304003321 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 869304003322 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 869304003323 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 869304003324 substrate binding pocket [chemical binding]; other site 869304003325 chain length determination region; other site 869304003326 substrate-Mg2+ binding site; other site 869304003327 catalytic residues [active] 869304003328 aspartate-rich region 1; other site 869304003329 active site lid residues [active] 869304003330 aspartate-rich region 2; other site 869304003331 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 869304003332 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 869304003333 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 869304003334 generic binding surface II; other site 869304003335 generic binding surface I; other site 869304003336 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 869304003337 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 869304003338 Sugar specificity; other site 869304003339 Pyrimidine base specificity; other site 869304003340 ATP-binding site [chemical binding]; other site 869304003341 Enterocin A Immunity; Region: EntA_Immun; pfam08951 869304003342 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 869304003343 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 869304003344 RNA binding site [nucleotide binding]; other site 869304003345 active site 869304003346 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 869304003347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 869304003348 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 869304003350 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 869304003351 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 869304003352 active site 869304003353 catalytic site [active] 869304003354 DNA gyrase subunit A; Validated; Region: PRK05560 869304003355 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 869304003356 CAP-like domain; other site 869304003357 active site 869304003358 primary dimer interface [polypeptide binding]; other site 869304003359 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869304003360 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869304003361 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869304003362 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869304003363 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869304003364 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869304003365 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 869304003366 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 869304003367 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869304003368 NAD binding site [chemical binding]; other site 869304003369 dimer interface [polypeptide binding]; other site 869304003370 substrate binding site [chemical binding]; other site 869304003371 Ion channel; Region: Ion_trans_2; pfam07885 869304003372 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 869304003373 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 869304003374 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 869304003375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 869304003376 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 869304003377 putative active site [active] 869304003378 heme pocket [chemical binding]; other site 869304003379 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 869304003380 dimer interface [polypeptide binding]; other site 869304003381 phosphorylation site [posttranslational modification] 869304003382 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 869304003383 ATP binding site [chemical binding]; other site 869304003384 Mg2+ binding site [ion binding]; other site 869304003385 G-X-G motif; other site 869304003386 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304003387 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 869304003388 active site 869304003389 phosphorylation site [posttranslational modification] 869304003390 intermolecular recognition site; other site 869304003391 dimerization interface [polypeptide binding]; other site 869304003392 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 869304003393 DNA binding site [nucleotide binding] 869304003394 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 869304003395 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 869304003396 minor groove reading motif; other site 869304003397 helix-hairpin-helix signature motif; other site 869304003398 substrate binding pocket [chemical binding]; other site 869304003399 active site 869304003400 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 869304003401 DNA binding and oxoG recognition site [nucleotide binding] 869304003402 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 869304003403 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 869304003404 Potassium binding sites [ion binding]; other site 869304003405 Cesium cation binding sites [ion binding]; other site 869304003406 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 869304003407 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 869304003408 Flavoprotein; Region: Flavoprotein; pfam02441 869304003409 Predicted membrane protein [Function unknown]; Region: COG4684 869304003410 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 869304003411 HTH domain; Region: HTH_11; pfam08279 869304003412 3H domain; Region: 3H; pfam02829 869304003413 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 869304003414 putative active site [active] 869304003415 nucleotide binding site [chemical binding]; other site 869304003416 nudix motif; other site 869304003417 putative metal binding site [ion binding]; other site 869304003418 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869304003419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304003420 Coenzyme A binding pocket [chemical binding]; other site 869304003421 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869304003422 excinuclease ABC subunit B; Provisional; Region: PRK05298 869304003423 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 869304003424 ATP binding site [chemical binding]; other site 869304003425 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 869304003426 nucleotide binding region [chemical binding]; other site 869304003427 ATP-binding site [chemical binding]; other site 869304003428 Ultra-violet resistance protein B; Region: UvrB; pfam12344 869304003429 UvrB/uvrC motif; Region: UVR; pfam02151 869304003430 CAAX protease self-immunity; Region: Abi; pfam02517 869304003431 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 869304003432 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304003433 substrate binding pocket [chemical binding]; other site 869304003434 membrane-bound complex binding site; other site 869304003435 hinge residues; other site 869304003436 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 869304003437 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304003438 substrate binding pocket [chemical binding]; other site 869304003439 membrane-bound complex binding site; other site 869304003440 hinge residues; other site 869304003441 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 869304003442 dimer interface [polypeptide binding]; other site 869304003443 conserved gate region; other site 869304003444 putative PBP binding loops; other site 869304003445 ABC-ATPase subunit interface; other site 869304003446 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869304003447 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869304003448 Walker A/P-loop; other site 869304003449 ATP binding site [chemical binding]; other site 869304003450 Q-loop/lid; other site 869304003451 ABC transporter signature motif; other site 869304003452 Walker B; other site 869304003453 D-loop; other site 869304003454 H-loop/switch region; other site 869304003455 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 869304003456 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 869304003457 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 869304003458 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 869304003459 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 869304003460 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 869304003461 P loop; other site 869304003462 GTP binding site [chemical binding]; other site 869304003463 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869304003464 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 869304003465 motif II; other site 869304003466 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869304003467 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869304003468 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 869304003469 active site 869304003470 motif I; other site 869304003471 motif II; other site 869304003472 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869304003473 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 869304003474 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 869304003475 Walker A/P-loop; other site 869304003476 ATP binding site [chemical binding]; other site 869304003477 Q-loop/lid; other site 869304003478 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 869304003479 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 869304003480 ABC transporter signature motif; other site 869304003481 Walker B; other site 869304003482 D-loop; other site 869304003483 H-loop/switch region; other site 869304003484 ribonuclease III; Reviewed; Region: rnc; PRK00102 869304003485 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 869304003486 dimerization interface [polypeptide binding]; other site 869304003487 active site 869304003488 metal binding site [ion binding]; metal-binding site 869304003489 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 869304003490 dsRNA binding site [nucleotide binding]; other site 869304003491 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 869304003492 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 869304003493 active site 869304003494 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 869304003495 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 869304003496 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 869304003497 Walker A motif; other site 869304003498 ATP binding site [chemical binding]; other site 869304003499 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 869304003501 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 869304003502 substrate binding site [chemical binding]; other site 869304003503 Predicted membrane protein [Function unknown]; Region: COG3326 869304003506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 869304003507 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 869304003508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 869304003509 DNA topoisomerase I; Validated; Region: PRK05582 869304003510 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 869304003511 active site 869304003512 interdomain interaction site; other site 869304003513 putative metal-binding site [ion binding]; other site 869304003514 nucleotide binding site [chemical binding]; other site 869304003515 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 869304003516 domain I; other site 869304003517 DNA binding groove [nucleotide binding] 869304003518 phosphate binding site [ion binding]; other site 869304003519 domain II; other site 869304003520 domain III; other site 869304003521 nucleotide binding site [chemical binding]; other site 869304003522 catalytic site [active] 869304003523 domain IV; other site 869304003524 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 869304003525 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 869304003526 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 869304003527 Predicted membrane protein [Function unknown]; Region: COG1808 869304003528 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 869304003529 DNA protecting protein DprA; Region: dprA; TIGR00732 869304003530 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 869304003531 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 869304003532 active site 869304003533 metal-binding site 869304003534 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 869304003535 Phosphotransferase enzyme family; Region: APH; pfam01636 869304003536 active site 869304003537 substrate binding site [chemical binding]; other site 869304003538 ATP binding site [chemical binding]; other site 869304003539 dimer interface [polypeptide binding]; other site 869304003540 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 869304003541 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869304003542 putative NAD(P) binding site [chemical binding]; other site 869304003543 putative catalytic Zn binding site [ion binding]; other site 869304003544 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 869304003545 substrate binding site; other site 869304003546 dimer interface; other site 869304003547 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 869304003548 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 869304003549 LicD family; Region: LicD; cl01378 869304003550 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 869304003551 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 869304003552 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869304003553 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 869304003554 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 869304003555 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869304003556 ATP-grasp domain; Region: ATP-grasp_4; cl17255 869304003557 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 869304003558 IMP binding site; other site 869304003559 dimer interface [polypeptide binding]; other site 869304003560 interdomain contacts; other site 869304003561 partial ornithine binding site; other site 869304003562 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 869304003563 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 869304003564 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 869304003565 catalytic site [active] 869304003566 subunit interface [polypeptide binding]; other site 869304003567 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 869304003568 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 869304003569 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 869304003570 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 869304003571 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304003572 active site 869304003573 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 869304003574 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 869304003575 minor groove reading motif; other site 869304003576 helix-hairpin-helix signature motif; other site 869304003577 substrate binding pocket [chemical binding]; other site 869304003578 active site 869304003579 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 869304003580 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869304003581 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304003582 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304003583 heat shock protein HtpX; Provisional; Region: PRK04897 869304003584 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 869304003585 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 869304003586 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 869304003587 S-adenosylmethionine binding site [chemical binding]; other site 869304003588 uracil transporter; Provisional; Region: PRK10720 869304003589 signal recognition particle protein; Provisional; Region: PRK10867 869304003590 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 869304003591 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 869304003592 P loop; other site 869304003593 GTP binding site [chemical binding]; other site 869304003594 Signal peptide binding domain; Region: SRP_SPB; pfam02978 869304003595 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 869304003596 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 869304003597 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 869304003598 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 869304003599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869304003600 Zn2+ binding site [ion binding]; other site 869304003601 Mg2+ binding site [ion binding]; other site 869304003602 sugar phosphate phosphatase; Provisional; Region: PRK10513 869304003603 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 869304003604 active site 869304003605 motif I; other site 869304003606 motif II; other site 869304003607 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 869304003608 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 869304003609 camphor resistance protein CrcB; Provisional; Region: PRK14229 869304003610 camphor resistance protein CrcB; Provisional; Region: PRK14221 869304003611 hypothetical protein; Provisional; Region: PRK07248 869304003612 flavodoxin; Validated; Region: PRK07308 869304003613 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 869304003614 DHH family; Region: DHH; pfam01368 869304003615 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 869304003618 glutamate dehydrogenase; Provisional; Region: PRK09414 869304003619 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 869304003620 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 869304003621 NAD(P) binding site [chemical binding]; other site 869304003626 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304003627 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304003628 Walker A/P-loop; other site 869304003629 ATP binding site [chemical binding]; other site 869304003630 Q-loop/lid; other site 869304003631 ABC transporter signature motif; other site 869304003632 Walker B; other site 869304003633 D-loop; other site 869304003634 H-loop/switch region; other site 869304003638 CAAX protease self-immunity; Region: Abi; pfam02517 869304003639 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 869304003640 ArsC family; Region: ArsC; pfam03960 869304003641 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 869304003642 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 869304003643 core dimer interface [polypeptide binding]; other site 869304003644 L10 interface [polypeptide binding]; other site 869304003645 L11 interface [polypeptide binding]; other site 869304003646 putative EF-Tu interaction site [polypeptide binding]; other site 869304003647 putative EF-G interaction site [polypeptide binding]; other site 869304003648 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 869304003649 23S rRNA interface [nucleotide binding]; other site 869304003650 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 869304003651 chlorohydrolase; Validated; Region: PRK06687 869304003652 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 869304003653 active site 869304003654 putative substrate binding pocket [chemical binding]; other site 869304003655 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869304003656 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304003657 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869304003658 Walker A/P-loop; other site 869304003659 ATP binding site [chemical binding]; other site 869304003660 Q-loop/lid; other site 869304003661 ABC transporter signature motif; other site 869304003662 Walker B; other site 869304003663 D-loop; other site 869304003664 H-loop/switch region; other site 869304003665 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869304003666 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304003667 APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination; Region: APC10-like; cl02148 869304003668 putative ligand binding site [chemical binding]; other site 869304003669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304003670 Walker A/P-loop; other site 869304003671 ATP binding site [chemical binding]; other site 869304003672 Q-loop/lid; other site 869304003673 ABC transporter signature motif; other site 869304003674 Walker B; other site 869304003675 D-loop; other site 869304003676 H-loop/switch region; other site 869304003677 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 869304003678 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 869304003679 SelR domain; Region: SelR; pfam01641 869304003680 homoserine kinase; Provisional; Region: PRK01212 869304003681 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869304003682 homoserine dehydrogenase; Provisional; Region: PRK06349 869304003683 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 869304003684 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 869304003685 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 869304003686 adaptor protein; Provisional; Region: PRK02315 869304003687 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 869304003688 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 869304003689 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 869304003690 active site 869304003691 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869304003692 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 869304003693 putative ADP-binding pocket [chemical binding]; other site 869304003694 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 869304003695 Transcriptional regulator [Transcription]; Region: LytR; COG1316 869304003696 prephenate dehydratase; Provisional; Region: PRK11898 869304003697 Prephenate dehydratase; Region: PDT; pfam00800 869304003698 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 869304003699 putative L-Phe binding site [chemical binding]; other site 869304003700 shikimate kinase; Reviewed; Region: aroK; PRK00131 869304003701 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 869304003702 ADP binding site [chemical binding]; other site 869304003703 magnesium binding site [ion binding]; other site 869304003704 putative shikimate binding site; other site 869304003705 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 869304003706 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 869304003707 hinge; other site 869304003708 active site 869304003709 hypothetical protein; Provisional; Region: PRK13676 869304003710 prephenate dehydrogenase; Validated; Region: PRK06545 869304003711 prephenate dehydrogenase; Validated; Region: PRK08507 869304003712 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 869304003713 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 869304003714 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 869304003715 Tetramer interface [polypeptide binding]; other site 869304003716 active site 869304003717 FMN-binding site [chemical binding]; other site 869304003718 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 869304003719 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 869304003720 active site 869304003721 dimer interface [polypeptide binding]; other site 869304003722 metal binding site [ion binding]; metal-binding site 869304003723 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 869304003724 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 869304003725 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 869304003726 shikimate binding site; other site 869304003727 NAD(P) binding site [chemical binding]; other site 869304003728 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 869304003729 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 869304003730 active site 869304003731 catalytic residue [active] 869304003732 dimer interface [polypeptide binding]; other site 869304003733 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 869304003734 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 869304003735 putative RNA binding site [nucleotide binding]; other site 869304003736 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 869304003738 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 869304003739 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869304003740 Walker A/P-loop; other site 869304003741 ATP binding site [chemical binding]; other site 869304003742 Q-loop/lid; other site 869304003743 ABC transporter signature motif; other site 869304003744 Walker B; other site 869304003745 D-loop; other site 869304003746 H-loop/switch region; other site 869304003747 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 869304003748 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 869304003749 active site 869304003750 Na/Ca binding site [ion binding]; other site 869304003751 catalytic site [active] 869304003752 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 869304003753 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 869304003754 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 869304003755 motif 1; other site 869304003756 active site 869304003757 motif 2; other site 869304003758 motif 3; other site 869304003759 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 869304003760 DHHA1 domain; Region: DHHA1; pfam02272 869304003761 Uncharacterized conserved protein [Function unknown]; Region: COG4894 869304003762 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 869304003763 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 869304003764 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869304003765 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 869304003766 dimer interface [polypeptide binding]; other site 869304003767 conserved gate region; other site 869304003768 putative PBP binding loops; other site 869304003769 ABC-ATPase subunit interface; other site 869304003770 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 869304003771 dimer interface [polypeptide binding]; other site 869304003772 conserved gate region; other site 869304003773 putative PBP binding loops; other site 869304003774 ABC-ATPase subunit interface; other site 869304003775 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869304003776 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 869304003777 Walker A/P-loop; other site 869304003778 ATP binding site [chemical binding]; other site 869304003779 Q-loop/lid; other site 869304003780 ABC transporter signature motif; other site 869304003781 Walker B; other site 869304003782 D-loop; other site 869304003783 H-loop/switch region; other site 869304003784 TOBE domain; Region: TOBE_2; pfam08402 869304003785 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 869304003786 FAD binding domain; Region: FAD_binding_4; pfam01565 869304003787 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 869304003789 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 869304003790 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 869304003791 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304003792 DNA-binding site [nucleotide binding]; DNA binding site 869304003793 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 869304003794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304003795 homodimer interface [polypeptide binding]; other site 869304003796 catalytic residue [active] 869304003797 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 869304003798 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304003799 substrate binding pocket [chemical binding]; other site 869304003800 membrane-bound complex binding site; other site 869304003801 hinge residues; other site 869304003802 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 869304003803 PhoU domain; Region: PhoU; pfam01895 869304003804 PhoU domain; Region: PhoU; pfam01895 869304003805 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 869304003806 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869304003807 Walker A/P-loop; other site 869304003808 ATP binding site [chemical binding]; other site 869304003809 Q-loop/lid; other site 869304003810 ABC transporter signature motif; other site 869304003811 Walker B; other site 869304003812 D-loop; other site 869304003813 H-loop/switch region; other site 869304003814 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 869304003815 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869304003816 Walker A/P-loop; other site 869304003817 ATP binding site [chemical binding]; other site 869304003818 Q-loop/lid; other site 869304003819 ABC transporter signature motif; other site 869304003820 Walker B; other site 869304003821 D-loop; other site 869304003822 H-loop/switch region; other site 869304003823 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 869304003824 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 869304003825 dimer interface [polypeptide binding]; other site 869304003826 conserved gate region; other site 869304003827 putative PBP binding loops; other site 869304003828 ABC-ATPase subunit interface; other site 869304003829 sulfate transport protein; Provisional; Region: cysT; CHL00187 869304003830 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 869304003831 dimer interface [polypeptide binding]; other site 869304003832 conserved gate region; other site 869304003833 putative PBP binding loops; other site 869304003834 ABC-ATPase subunit interface; other site 869304003835 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 869304003836 phosphate binding protein; Region: ptsS_2; TIGR02136 869304003837 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 869304003838 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 869304003839 S-adenosylmethionine binding site [chemical binding]; other site 869304003840 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 869304003841 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 869304003842 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 869304003843 active site 869304003844 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 869304003845 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 869304003846 ArsC family; Region: ArsC; pfam03960 869304003847 putative catalytic residues [active] 869304003848 thiol/disulfide switch; other site 869304003849 Predicted membrane protein [Function unknown]; Region: COG4478 869304003850 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 869304003851 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 869304003852 active site 869304003853 motif I; other site 869304003854 motif II; other site 869304003855 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 869304003856 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 869304003857 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 869304003858 active site 869304003859 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 869304003860 active site 869304003861 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 869304003862 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 869304003863 FeS/SAM binding site; other site 869304003864 HemN C-terminal domain; Region: HemN_C; pfam06969 869304003865 YtxH-like protein; Region: YtxH; pfam12732 869304003866 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 869304003867 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 869304003868 HPr kinase/phosphorylase; Provisional; Region: PRK05428 869304003869 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 869304003870 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 869304003871 Hpr binding site; other site 869304003872 active site 869304003873 homohexamer subunit interaction site [polypeptide binding]; other site 869304003874 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 869304003875 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 869304003876 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 869304003877 active site 869304003878 trimer interface [polypeptide binding]; other site 869304003879 allosteric site; other site 869304003880 active site lid [active] 869304003881 hexamer (dimer of trimers) interface [polypeptide binding]; other site 869304003882 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 869304003883 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 869304003884 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 869304003885 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304003886 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869304003887 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 869304003888 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 869304003889 homodimer interface [polypeptide binding]; other site 869304003890 NAD binding pocket [chemical binding]; other site 869304003891 ATP binding pocket [chemical binding]; other site 869304003892 Mg binding site [ion binding]; other site 869304003893 active-site loop [active] 869304003894 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 869304003895 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 869304003896 active site 869304003897 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 869304003898 non-specific DNA binding site [nucleotide binding]; other site 869304003899 salt bridge; other site 869304003900 sequence-specific DNA binding site [nucleotide binding]; other site 869304003903 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 869304003904 CHY zinc finger; Region: zf-CHY; pfam05495 869304003905 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 869304003906 Peptidase family U32; Region: Peptidase_U32; pfam01136 869304003908 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 869304003909 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 869304003910 S-adenosylmethionine binding site [chemical binding]; other site 869304003911 Helix-turn-helix domain; Region: HTH_18; pfam12833 869304003912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869304003913 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869304003914 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304003915 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304003916 Walker A/P-loop; other site 869304003917 ATP binding site [chemical binding]; other site 869304003918 Q-loop/lid; other site 869304003919 ABC transporter signature motif; other site 869304003920 Walker B; other site 869304003921 D-loop; other site 869304003922 H-loop/switch region; other site 869304003923 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869304003924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304003925 Walker A/P-loop; other site 869304003926 ATP binding site [chemical binding]; other site 869304003927 Q-loop/lid; other site 869304003928 ABC transporter signature motif; other site 869304003929 Walker B; other site 869304003930 D-loop; other site 869304003931 H-loop/switch region; other site 869304003932 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 869304003933 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869304003934 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869304003935 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869304003936 Walker A/P-loop; other site 869304003937 ATP binding site [chemical binding]; other site 869304003938 Q-loop/lid; other site 869304003939 ABC transporter signature motif; other site 869304003940 Walker B; other site 869304003941 D-loop; other site 869304003942 H-loop/switch region; other site 869304003943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304003944 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 869304003945 Walker A/P-loop; other site 869304003946 ATP binding site [chemical binding]; other site 869304003947 Q-loop/lid; other site 869304003948 ABC transporter signature motif; other site 869304003949 Walker B; other site 869304003950 D-loop; other site 869304003951 H-loop/switch region; other site 869304003954 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 869304003955 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 869304003957 GMP synthase; Reviewed; Region: guaA; PRK00074 869304003958 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 869304003959 AMP/PPi binding site [chemical binding]; other site 869304003960 candidate oxyanion hole; other site 869304003961 catalytic triad [active] 869304003962 potential glutamine specificity residues [chemical binding]; other site 869304003963 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 869304003964 ATP Binding subdomain [chemical binding]; other site 869304003965 Dimerization subdomain; other site 869304003966 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869304003967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304003968 DNA-binding site [nucleotide binding]; DNA binding site 869304003969 UTRA domain; Region: UTRA; pfam07702 869304003970 EamA-like transporter family; Region: EamA; pfam00892 869304003971 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 869304003972 Beta-lactamase; Region: Beta-lactamase; pfam00144 869304003973 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 869304003974 active site 869304003975 catalytic triad [active] 869304003976 oxyanion hole [active] 869304003977 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869304003978 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 869304003979 active site 869304003980 motif I; other site 869304003981 motif II; other site 869304003982 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 869304003984 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 869304003985 active site 869304003986 catalytic residues [active] 869304003987 metal binding site [ion binding]; metal-binding site 869304003988 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 869304003989 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 869304003990 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 869304003991 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 869304003992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869304003993 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869304003994 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 869304003995 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869304003996 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869304003997 Walker A/P-loop; other site 869304003998 ATP binding site [chemical binding]; other site 869304003999 Q-loop/lid; other site 869304004000 ABC transporter signature motif; other site 869304004001 Walker B; other site 869304004002 D-loop; other site 869304004003 H-loop/switch region; other site 869304004004 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 869304004005 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 869304004006 ABC-ATPase subunit interface; other site 869304004007 putative PBP binding loops; other site 869304004008 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 869304004009 putative ArsC-like catalytic residues; other site 869304004010 putative TRX-like catalytic residues [active] 869304004011 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 869304004012 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 869304004013 DNA binding site [nucleotide binding] 869304004014 active site 869304004015 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869304004016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 869304004017 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 869304004018 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 869304004019 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 869304004020 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 869304004021 predicted active site [active] 869304004022 catalytic triad [active] 869304004023 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 869304004024 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 869304004025 active site 869304004026 multimer interface [polypeptide binding]; other site 869304004027 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 869304004028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869304004029 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869304004030 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 869304004031 ApbE family; Region: ApbE; pfam02424 869304004032 Predicted flavoprotein [General function prediction only]; Region: COG0431 869304004033 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 869304004034 Predicted flavoprotein [General function prediction only]; Region: COG0431 869304004035 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 869304004036 PAS domain; Region: PAS_10; pfam13596 869304004037 hypothetical protein; Provisional; Region: PRK02539 869304004038 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 869304004039 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 869304004040 DALR anticodon binding domain; Region: DALR_1; pfam05746 869304004041 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 869304004042 dimer interface [polypeptide binding]; other site 869304004043 motif 1; other site 869304004044 active site 869304004045 motif 2; other site 869304004046 motif 3; other site 869304004047 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 869304004048 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 869304004049 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 869304004050 active site 869304004051 catalytic tetrad [active] 869304004052 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 869304004053 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 869304004054 NodB motif; other site 869304004055 active site 869304004056 catalytic site [active] 869304004057 Zn binding site [ion binding]; other site 869304004058 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 869304004059 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 869304004060 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869304004061 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 869304004062 DEAD-like helicases superfamily; Region: DEXDc; smart00487 869304004063 ATP binding site [chemical binding]; other site 869304004064 putative Mg++ binding site [ion binding]; other site 869304004065 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 869304004066 nucleotide binding region [chemical binding]; other site 869304004067 ATP-binding site [chemical binding]; other site 869304004069 elongation factor Tu; Reviewed; Region: PRK00049 869304004070 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 869304004071 G1 box; other site 869304004072 GEF interaction site [polypeptide binding]; other site 869304004073 GTP/Mg2+ binding site [chemical binding]; other site 869304004074 Switch I region; other site 869304004075 G2 box; other site 869304004076 G3 box; other site 869304004077 Switch II region; other site 869304004078 G4 box; other site 869304004079 G5 box; other site 869304004080 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 869304004081 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 869304004082 Antibiotic Binding Site [chemical binding]; other site 869304004083 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 869304004084 amphipathic channel; other site 869304004085 Asn-Pro-Ala signature motifs; other site 869304004088 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 869304004089 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 869304004090 active site 869304004091 substrate binding site [chemical binding]; other site 869304004092 metal binding site [ion binding]; metal-binding site 869304004093 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 869304004094 catalytic residues [active] 869304004095 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869304004096 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 869304004097 substrate binding pocket [chemical binding]; other site 869304004098 membrane-bound complex binding site; other site 869304004099 hinge residues; other site 869304004100 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304004101 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304004102 Walker A/P-loop; other site 869304004103 ATP binding site [chemical binding]; other site 869304004104 Q-loop/lid; other site 869304004105 ABC transporter signature motif; other site 869304004106 Walker B; other site 869304004107 D-loop; other site 869304004108 H-loop/switch region; other site 869304004109 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 869304004110 dimer interface [polypeptide binding]; other site 869304004111 conserved gate region; other site 869304004112 putative PBP binding loops; other site 869304004113 ABC-ATPase subunit interface; other site 869304004114 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 869304004115 TPR motif; other site 869304004116 binding surface 869304004117 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 869304004118 binding surface 869304004119 TPR motif; other site 869304004120 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 869304004121 Domain of unknown function DUF20; Region: UPF0118; pfam01594 869304004122 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 869304004123 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 869304004124 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 869304004125 gamma subunit interface [polypeptide binding]; other site 869304004126 epsilon subunit interface [polypeptide binding]; other site 869304004127 LBP interface [polypeptide binding]; other site 869304004128 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 869304004129 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 869304004130 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 869304004131 alpha subunit interaction interface [polypeptide binding]; other site 869304004132 Walker A motif; other site 869304004133 ATP binding site [chemical binding]; other site 869304004134 Walker B motif; other site 869304004135 inhibitor binding site; inhibition site 869304004136 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 869304004137 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 869304004138 core domain interface [polypeptide binding]; other site 869304004139 delta subunit interface [polypeptide binding]; other site 869304004140 epsilon subunit interface [polypeptide binding]; other site 869304004141 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 869304004142 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 869304004143 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 869304004144 beta subunit interaction interface [polypeptide binding]; other site 869304004145 Walker A motif; other site 869304004146 ATP binding site [chemical binding]; other site 869304004147 Walker B motif; other site 869304004148 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 869304004149 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 869304004150 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 869304004151 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 869304004152 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 869304004153 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 869304004154 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 869304004155 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 869304004157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304004158 Coenzyme A binding pocket [chemical binding]; other site 869304004159 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 869304004160 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 869304004161 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 869304004162 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 869304004163 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 869304004164 dimerization interface [polypeptide binding]; other site 869304004165 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 869304004166 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304004167 Coenzyme A binding pocket [chemical binding]; other site 869304004168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304004169 Coenzyme A binding pocket [chemical binding]; other site 869304004170 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 869304004171 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869304004172 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869304004173 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869304004174 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 869304004175 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 869304004176 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 869304004177 ATP binding site [chemical binding]; other site 869304004178 putative Mg++ binding site [ion binding]; other site 869304004179 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 869304004180 nucleotide binding region [chemical binding]; other site 869304004181 ATP-binding site [chemical binding]; other site 869304004182 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 869304004183 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 869304004184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304004185 homodimer interface [polypeptide binding]; other site 869304004186 catalytic residue [active] 869304004187 cystathionine gamma-synthase; Reviewed; Region: PRK07269 869304004188 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 869304004189 homodimer interface [polypeptide binding]; other site 869304004190 substrate-cofactor binding pocket; other site 869304004191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304004192 catalytic residue [active] 869304004194 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 869304004195 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 869304004196 peptide binding site [polypeptide binding]; other site 869304004197 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 869304004198 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 869304004199 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 869304004200 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869304004201 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869304004202 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869304004203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 869304004204 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 869304004205 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 869304004206 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 869304004207 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 869304004208 DHH family; Region: DHH; pfam01368 869304004209 DHHA2 domain; Region: DHHA2; pfam02833 869304004210 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 869304004211 GIY-YIG motif/motif A; other site 869304004212 putative active site [active] 869304004213 putative metal binding site [ion binding]; other site 869304004214 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 869304004215 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 869304004216 S-adenosylmethionine binding site [chemical binding]; other site 869304004217 hypothetical protein; Provisional; Region: PRK07252 869304004218 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 869304004219 RNA binding site [nucleotide binding]; other site 869304004220 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 869304004221 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869304004222 active site 869304004223 motif I; other site 869304004224 motif II; other site 869304004225 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 869304004226 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 869304004227 active site 869304004228 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 869304004229 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 869304004230 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 869304004231 dimer interface [polypeptide binding]; other site 869304004232 ssDNA binding site [nucleotide binding]; other site 869304004233 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869304004234 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 869304004235 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 869304004236 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 869304004237 putative dimer interface [polypeptide binding]; other site 869304004238 putative anticodon binding site; other site 869304004239 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 869304004240 homodimer interface [polypeptide binding]; other site 869304004241 motif 1; other site 869304004242 motif 2; other site 869304004243 active site 869304004244 motif 3; other site 869304004245 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 869304004246 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869304004247 aspartate aminotransferase; Provisional; Region: PRK05764 869304004248 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 869304004249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304004250 homodimer interface [polypeptide binding]; other site 869304004251 catalytic residue [active] 869304004252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 869304004253 Predicted flavoprotein [General function prediction only]; Region: COG0431 869304004254 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 869304004255 hypothetical protein; Validated; Region: PRK02101 869304004256 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 869304004257 active site 869304004258 catalytic residues [active] 869304004259 metal binding site [ion binding]; metal-binding site 869304004260 putative S-transferase; Provisional; Region: PRK11752 869304004261 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 869304004262 C-terminal domain interface [polypeptide binding]; other site 869304004263 GSH binding site (G-site) [chemical binding]; other site 869304004264 dimer interface [polypeptide binding]; other site 869304004265 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 869304004266 N-terminal domain interface [polypeptide binding]; other site 869304004267 dimer interface [polypeptide binding]; other site 869304004268 substrate binding pocket (H-site) [chemical binding]; other site 869304004269 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 869304004270 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 869304004271 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869304004272 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 869304004273 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 869304004274 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 869304004275 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 869304004276 Cation efflux family; Region: Cation_efflux; pfam01545 869304004277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 869304004278 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869304004279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304004280 Walker A/P-loop; other site 869304004281 ATP binding site [chemical binding]; other site 869304004282 Q-loop/lid; other site 869304004283 ABC transporter signature motif; other site 869304004284 Walker B; other site 869304004285 D-loop; other site 869304004286 H-loop/switch region; other site 869304004287 ABC transporter; Region: ABC_tran_2; pfam12848 869304004288 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304004289 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 869304004290 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 869304004291 active site 869304004292 NTP binding site [chemical binding]; other site 869304004293 metal binding triad [ion binding]; metal-binding site 869304004294 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 869304004295 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 869304004296 dihydrodipicolinate reductase; Provisional; Region: PRK00048 869304004297 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 869304004298 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 869304004299 EDD domain protein, DegV family; Region: DegV; TIGR00762 869304004300 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869304004301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 869304004302 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 869304004303 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 869304004304 active site 869304004305 substrate binding site [chemical binding]; other site 869304004306 metal binding site [ion binding]; metal-binding site 869304004307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 869304004308 YbbR-like protein; Region: YbbR; pfam07949 869304004309 Uncharacterized conserved protein [Function unknown]; Region: COG1624 869304004310 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 869304004311 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 869304004312 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869304004313 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869304004314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 869304004315 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 869304004316 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 869304004317 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 869304004318 dimer interface [polypeptide binding]; other site 869304004319 phosphate binding site [ion binding]; other site 869304004320 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 869304004321 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 869304004322 homotrimer interaction site [polypeptide binding]; other site 869304004323 putative active site [active] 869304004324 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 869304004325 G1 box; other site 869304004326 GTP/Mg2+ binding site [chemical binding]; other site 869304004327 Switch I region; other site 869304004328 G2 box; other site 869304004329 G3 box; other site 869304004330 Switch II region; other site 869304004331 G4 box; other site 869304004332 G5 box; other site 869304004333 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 869304004334 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 869304004335 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 869304004336 Walker A motif; other site 869304004337 ATP binding site [chemical binding]; other site 869304004338 Walker B motif; other site 869304004339 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 869304004340 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 869304004341 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 869304004342 folate binding site [chemical binding]; other site 869304004343 NADP+ binding site [chemical binding]; other site 869304004346 triosephosphate isomerase; Provisional; Region: PRK14567 869304004347 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 869304004348 substrate binding site [chemical binding]; other site 869304004349 dimer interface [polypeptide binding]; other site 869304004350 catalytic triad [active] 869304004351 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 869304004352 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 869304004353 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 869304004354 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 869304004355 proposed active site lysine [active] 869304004356 conserved cys residue [active] 869304004357 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304004358 active site 869304004359 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869304004360 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 869304004361 S-adenosylmethionine binding site [chemical binding]; other site 869304004362 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 869304004363 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 869304004364 Walker A/P-loop; other site 869304004365 ATP binding site [chemical binding]; other site 869304004366 Q-loop/lid; other site 869304004367 ABC transporter signature motif; other site 869304004368 Walker B; other site 869304004369 D-loop; other site 869304004370 H-loop/switch region; other site 869304004371 TOBE domain; Region: TOBE_2; pfam08402 869304004372 Isochorismatase family; Region: Isochorismatase; pfam00857 869304004373 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 869304004374 catalytic triad [active] 869304004375 conserved cis-peptide bond; other site 869304004376 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 869304004377 CodY GAF-like domain; Region: CodY; pfam06018 869304004378 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 869304004379 putative DNA binding site [nucleotide binding]; other site 869304004380 putative Zn2+ binding site [ion binding]; other site 869304004381 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 869304004382 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 869304004383 ATP binding site [chemical binding]; other site 869304004384 Mg++ binding site [ion binding]; other site 869304004385 motif III; other site 869304004386 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 869304004387 nucleotide binding region [chemical binding]; other site 869304004388 ATP-binding site [chemical binding]; other site 869304004389 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 869304004390 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 869304004391 putative substrate translocation pore; other site 869304004392 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 869304004393 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 869304004394 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869304004395 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869304004396 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 869304004397 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869304004398 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 869304004399 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 869304004400 catalytic triad [active] 869304004401 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 869304004402 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 869304004403 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 869304004404 active site 869304004405 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869304004406 putative transposase OrfB; Reviewed; Region: PHA02517 869304004407 HTH-like domain; Region: HTH_21; pfam13276 869304004408 Integrase core domain; Region: rve; pfam00665 869304004409 Integrase core domain; Region: rve_2; pfam13333 869304004411 Predicted membrane protein [Function unknown]; Region: COG4720 869304004412 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 869304004413 dimer interface [polypeptide binding]; other site 869304004414 substrate binding site [chemical binding]; other site 869304004415 ATP binding site [chemical binding]; other site 869304004416 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 869304004417 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 869304004418 dimerization interface 3.5A [polypeptide binding]; other site 869304004419 active site 869304004420 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 869304004421 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 869304004422 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 869304004423 PhnA protein; Region: PhnA; pfam03831 869304004424 cytidylate kinase; Provisional; Region: cmk; PRK00023 869304004425 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 869304004426 CMP-binding site; other site 869304004427 The sites determining sugar specificity; other site 869304004428 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 869304004429 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 869304004430 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 869304004431 Ligand binding site; other site 869304004432 Putative Catalytic site; other site 869304004433 DXD motif; other site 869304004434 UDP-glucose 4-epimerase; Region: PLN02240 869304004435 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 869304004436 NAD binding site [chemical binding]; other site 869304004437 homodimer interface [polypeptide binding]; other site 869304004438 active site 869304004439 substrate binding site [chemical binding]; other site 869304004440 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 869304004441 Uncharacterized conserved protein [Function unknown]; Region: COG0327 869304004442 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 869304004443 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 869304004444 Family of unknown function (DUF633); Region: DUF633; pfam04816 869304004446 putative transposase OrfB; Reviewed; Region: PHA02517 869304004447 HTH-like domain; Region: HTH_21; pfam13276 869304004448 Integrase core domain; Region: rve; pfam00665 869304004449 Integrase core domain; Region: rve_2; pfam13333 869304004451 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 869304004452 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 869304004453 TPP-binding site [chemical binding]; other site 869304004454 dimer interface [polypeptide binding]; other site 869304004455 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 869304004456 PYR/PP interface [polypeptide binding]; other site 869304004457 dimer interface [polypeptide binding]; other site 869304004458 TPP binding site [chemical binding]; other site 869304004459 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869304004460 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 869304004461 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 869304004462 substrate binding site [chemical binding]; other site 869304004463 hexamer interface [polypeptide binding]; other site 869304004464 metal binding site [ion binding]; metal-binding site 869304004465 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 869304004466 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869304004467 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 869304004468 active site 869304004469 P-loop; other site 869304004470 phosphorylation site [posttranslational modification] 869304004471 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 869304004472 active site 869304004473 phosphorylation site [posttranslational modification] 869304004474 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 869304004475 active site 869304004476 phosphorylation site [posttranslational modification] 869304004477 HTH domain; Region: HTH_11; pfam08279 869304004478 Mga helix-turn-helix domain; Region: Mga; pfam05043 869304004479 PRD domain; Region: PRD; pfam00874 869304004480 PRD domain; Region: PRD; pfam00874 869304004481 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 869304004482 active site 869304004483 P-loop; other site 869304004484 phosphorylation site [posttranslational modification] 869304004485 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 869304004486 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869304004487 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 869304004488 motif II; other site 869304004489 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 869304004490 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 869304004491 putative acyl-acceptor binding pocket; other site 869304004492 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 869304004493 Cadmium resistance transporter; Region: Cad; pfam03596 869304004494 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 869304004495 16S/18S rRNA binding site [nucleotide binding]; other site 869304004496 S13e-L30e interaction site [polypeptide binding]; other site 869304004497 25S rRNA binding site [nucleotide binding]; other site 869304004498 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 869304004499 NADH(P)-binding; Region: NAD_binding_10; pfam13460 869304004500 NAD binding site [chemical binding]; other site 869304004501 substrate binding site [chemical binding]; other site 869304004502 putative active site [active] 869304004503 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 869304004504 metal binding site [ion binding]; metal-binding site 869304004505 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 869304004506 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 869304004507 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 869304004508 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 869304004509 active site 869304004510 dimer interface [polypeptide binding]; other site 869304004511 motif 1; other site 869304004512 motif 2; other site 869304004513 motif 3; other site 869304004514 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 869304004515 anticodon binding site; other site 869304004516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869304004517 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 869304004518 ATP binding site [chemical binding]; other site 869304004519 Mg2+ binding site [ion binding]; other site 869304004520 G-X-G motif; other site 869304004521 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304004522 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 869304004523 active site 869304004524 phosphorylation site [posttranslational modification] 869304004525 intermolecular recognition site; other site 869304004526 dimerization interface [polypeptide binding]; other site 869304004527 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 869304004528 DNA binding site [nucleotide binding] 869304004529 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 869304004530 nucleophilic elbow; other site 869304004531 catalytic triad; other site 869304004532 Predicted transcriptional regulator [Transcription]; Region: COG1959 869304004533 Transcriptional regulator; Region: Rrf2; pfam02082 869304004535 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 869304004536 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 869304004537 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 869304004538 FeoA domain; Region: FeoA; pfam04023 869304004540 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 869304004541 putative active site [active] 869304004542 dimerization interface [polypeptide binding]; other site 869304004543 putative tRNAtyr binding site [nucleotide binding]; other site 869304004544 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 869304004545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869304004546 Zn2+ binding site [ion binding]; other site 869304004547 Mg2+ binding site [ion binding]; other site 869304004548 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 869304004549 synthetase active site [active] 869304004550 NTP binding site [chemical binding]; other site 869304004551 metal binding site [ion binding]; metal-binding site 869304004552 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 869304004553 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 869304004554 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 869304004555 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 869304004556 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 869304004557 active site 869304004558 Zn binding site [ion binding]; other site 869304004559 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 869304004560 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 869304004561 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 869304004562 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 869304004563 ABC-ATPase subunit interface; other site 869304004564 dimer interface [polypeptide binding]; other site 869304004565 putative PBP binding regions; other site 869304004566 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869304004567 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 869304004568 metal binding site [ion binding]; metal-binding site 869304004569 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 869304004570 dimer interface [polypeptide binding]; other site 869304004571 catalytic triad [active] 869304004572 peroxidatic and resolving cysteines [active] 869304004574 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304004575 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304004576 Walker A/P-loop; other site 869304004577 ATP binding site [chemical binding]; other site 869304004578 Q-loop/lid; other site 869304004579 ABC transporter signature motif; other site 869304004580 Walker B; other site 869304004581 D-loop; other site 869304004582 H-loop/switch region; other site 869304004584 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 869304004585 catalytic core [active] 869304004586 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 869304004587 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 869304004588 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869304004589 active site 869304004590 HIGH motif; other site 869304004591 nucleotide binding site [chemical binding]; other site 869304004592 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 869304004593 active site 869304004594 KMSKS motif; other site 869304004595 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 869304004596 tRNA binding surface [nucleotide binding]; other site 869304004597 anticodon binding site; other site 869304004598 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 869304004600 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 869304004601 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 869304004602 RNA binding surface [nucleotide binding]; other site 869304004603 YGGT family; Region: YGGT; pfam02325 869304004604 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 869304004605 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 869304004606 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869304004607 catalytic residue [active] 869304004608 cell division protein FtsZ; Validated; Region: PRK09330 869304004609 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 869304004610 nucleotide binding site [chemical binding]; other site 869304004611 SulA interaction site; other site 869304004612 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 869304004613 Cell division protein FtsA; Region: FtsA; smart00842 869304004614 Cell division protein FtsA; Region: FtsA; pfam14450 869304004615 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 869304004616 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 869304004617 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 869304004618 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 869304004619 nudix motif; other site 869304004620 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 869304004621 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869304004622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869304004623 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869304004624 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 869304004625 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 869304004626 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 869304004627 recombination protein RecR; Reviewed; Region: recR; PRK00076 869304004628 RecR protein; Region: RecR; pfam02132 869304004629 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 869304004630 putative active site [active] 869304004631 putative metal-binding site [ion binding]; other site 869304004632 tetramer interface [polypeptide binding]; other site 869304004633 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 869304004634 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 869304004635 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 869304004636 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 869304004637 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 869304004638 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 869304004639 putative active site [active] 869304004640 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869304004641 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869304004642 nucleotide binding site [chemical binding]; other site 869304004643 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 869304004644 Class I aldolases; Region: Aldolase_Class_I; cl17187 869304004645 catalytic residue [active] 869304004646 Protein of unknown function, DUF624; Region: DUF624; pfam04854 869304004647 Domain of unknown function (DUF386); Region: DUF386; pfam04074 869304004648 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869304004649 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 869304004650 dimer interface [polypeptide binding]; other site 869304004651 conserved gate region; other site 869304004652 putative PBP binding loops; other site 869304004653 ABC-ATPase subunit interface; other site 869304004654 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869304004655 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 869304004656 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 869304004657 putative PBP binding loops; other site 869304004658 dimer interface [polypeptide binding]; other site 869304004659 ABC-ATPase subunit interface; other site 869304004660 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869304004661 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869304004662 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 869304004663 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869304004664 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 869304004665 active site turn [active] 869304004666 phosphorylation site [posttranslational modification] 869304004667 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 869304004668 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 869304004669 putative active site cavity [active] 869304004670 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 869304004671 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869304004672 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 869304004673 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 869304004674 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 869304004675 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 869304004676 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 869304004677 Asp-box motif; other site 869304004678 catalytic site [active] 869304004680 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869304004681 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 869304004682 dimer interface [polypeptide binding]; other site 869304004683 conserved gate region; other site 869304004684 putative PBP binding loops; other site 869304004685 ABC-ATPase subunit interface; other site 869304004686 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869304004687 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869304004688 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 869304004689 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869304004690 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 869304004691 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 869304004692 Asp-box motif; other site 869304004693 catalytic site [active] 869304004694 Procyclic acidic repetitive protein (PARP); Region: Trypan_PARP; pfam05887 869304004695 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 869304004696 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 869304004697 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 869304004698 ssDNA binding site; other site 869304004699 generic binding surface II; other site 869304004700 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 869304004701 ATP binding site [chemical binding]; other site 869304004702 putative Mg++ binding site [ion binding]; other site 869304004703 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 869304004704 nucleotide binding region [chemical binding]; other site 869304004705 ATP-binding site [chemical binding]; other site 869304004706 alanine racemase; Reviewed; Region: alr; PRK00053 869304004707 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 869304004708 active site 869304004709 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869304004710 dimer interface [polypeptide binding]; other site 869304004711 substrate binding site [chemical binding]; other site 869304004712 catalytic residues [active] 869304004713 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 869304004714 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 869304004715 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 869304004716 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 869304004717 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 869304004718 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 869304004719 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 869304004720 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 869304004721 nucleotide binding region [chemical binding]; other site 869304004722 ATP-binding site [chemical binding]; other site 869304004723 SEC-C motif; Region: SEC-C; pfam02810 869304004724 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 869304004725 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869304004726 Walker A/P-loop; other site 869304004727 ATP binding site [chemical binding]; other site 869304004728 Q-loop/lid; other site 869304004729 ABC transporter signature motif; other site 869304004730 Walker B; other site 869304004731 D-loop; other site 869304004732 H-loop/switch region; other site 869304004733 GTP-binding protein Der; Reviewed; Region: PRK00093 869304004734 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 869304004735 G1 box; other site 869304004736 GTP/Mg2+ binding site [chemical binding]; other site 869304004737 Switch I region; other site 869304004738 G2 box; other site 869304004739 Switch II region; other site 869304004740 G3 box; other site 869304004741 G4 box; other site 869304004742 G5 box; other site 869304004743 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 869304004744 G1 box; other site 869304004745 GTP/Mg2+ binding site [chemical binding]; other site 869304004746 Switch I region; other site 869304004747 G2 box; other site 869304004748 G3 box; other site 869304004749 Switch II region; other site 869304004750 G4 box; other site 869304004751 G5 box; other site 869304004752 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 869304004753 dimer interface [polypeptide binding]; other site 869304004754 FMN binding site [chemical binding]; other site 869304004755 NADPH bind site [chemical binding]; other site 869304004756 primosomal protein DnaI; Reviewed; Region: PRK08939 869304004757 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 869304004758 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 869304004759 Walker A motif; other site 869304004760 ATP binding site [chemical binding]; other site 869304004761 Walker B motif; other site 869304004762 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 869304004763 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 869304004764 ATP cone domain; Region: ATP-cone; pfam03477 869304004765 Predicted transcriptional regulators [Transcription]; Region: COG1725 869304004766 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304004767 DNA-binding site [nucleotide binding]; DNA binding site 869304004768 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 869304004769 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869304004770 Walker A/P-loop; other site 869304004771 ATP binding site [chemical binding]; other site 869304004772 Q-loop/lid; other site 869304004773 ABC transporter signature motif; other site 869304004774 Walker B; other site 869304004775 D-loop; other site 869304004776 H-loop/switch region; other site 869304004777 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 869304004778 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 869304004779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304004780 Walker A/P-loop; other site 869304004781 ATP binding site [chemical binding]; other site 869304004782 Q-loop/lid; other site 869304004783 ABC transporter signature motif; other site 869304004784 Walker B; other site 869304004785 D-loop; other site 869304004786 H-loop/switch region; other site 869304004787 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 869304004788 Uncharacterized conserved protein [Function unknown]; Region: COG0398 869304004789 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 869304004790 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869304004791 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869304004792 nucleotide binding site [chemical binding]; other site 869304004793 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 869304004794 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 869304004795 active site turn [active] 869304004796 phosphorylation site [posttranslational modification] 869304004797 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869304004798 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 869304004799 HPr interaction site; other site 869304004800 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869304004801 active site 869304004802 phosphorylation site [posttranslational modification] 869304004803 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 869304004804 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 869304004805 substrate binding [chemical binding]; other site 869304004806 active site 869304004807 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 869304004808 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869304004809 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869304004810 DNA binding site [nucleotide binding] 869304004811 domain linker motif; other site 869304004812 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 869304004813 dimerization interface [polypeptide binding]; other site 869304004814 ligand binding site [chemical binding]; other site 869304004815 sodium binding site [ion binding]; other site 869304004816 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 869304004817 homodimer interface [polypeptide binding]; other site 869304004818 catalytic residues [active] 869304004819 NAD binding site [chemical binding]; other site 869304004820 substrate binding pocket [chemical binding]; other site 869304004821 flexible flap; other site 869304004822 "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 869304004823 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 869304004824 dimer interface [polypeptide binding]; other site 869304004825 active site 869304004826 IS1381 orfs A and B appear to have fused into the same reading frame due to a small deletion 869304004827 Uncharacterized conserved protein [Function unknown]; Region: COG3610 869304004828 Uncharacterized conserved protein [Function unknown]; Region: COG2966 869304004829 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 869304004830 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 869304004831 Catalytic domain of Protein Kinases; Region: PKc; cd00180 869304004832 active site 869304004833 ATP binding site [chemical binding]; other site 869304004834 substrate binding site [chemical binding]; other site 869304004835 activation loop (A-loop); other site 869304004836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 869304004837 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 869304004838 PASTA domain; Region: PASTA; smart00740 869304004839 PASTA domain; Region: PASTA; smart00740 869304004840 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 869304004841 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 869304004842 active site 869304004843 16S rRNA methyltransferase B; Provisional; Region: PRK14902 869304004844 NusB family; Region: NusB; pfam01029 869304004845 putative RNA binding site [nucleotide binding]; other site 869304004846 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 869304004847 S-adenosylmethionine binding site [chemical binding]; other site 869304004848 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 869304004849 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 869304004850 putative active site [active] 869304004851 substrate binding site [chemical binding]; other site 869304004852 putative cosubstrate binding site; other site 869304004853 catalytic site [active] 869304004854 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 869304004855 substrate binding site [chemical binding]; other site 869304004856 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 869304004857 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 869304004858 ATP binding site [chemical binding]; other site 869304004859 putative Mg++ binding site [ion binding]; other site 869304004860 helicase superfamily c-terminal domain; Region: HELICc; smart00490 869304004861 ATP-binding site [chemical binding]; other site 869304004862 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 869304004863 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 869304004864 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 869304004865 catalytic site [active] 869304004866 G-X2-G-X-G-K; other site 869304004867 hypothetical protein; Provisional; Region: PRK00106 869304004868 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869304004869 Zn2+ binding site [ion binding]; other site 869304004870 Mg2+ binding site [ion binding]; other site 869304004871 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 869304004872 hypothetical protein; Provisional; Region: PRK13670 869304004873 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 869304004874 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 869304004875 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 869304004876 S-adenosylmethionine binding site [chemical binding]; other site 869304004877 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 869304004878 Isochorismatase family; Region: Isochorismatase; pfam00857 869304004879 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 869304004880 catalytic triad [active] 869304004881 conserved cis-peptide bond; other site 869304004882 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869304004883 Zn2+ binding site [ion binding]; other site 869304004884 Mg2+ binding site [ion binding]; other site 869304004885 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 869304004886 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 869304004887 active site 869304004888 (T/H)XGH motif; other site 869304004889 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 869304004890 GTPase YqeH; Provisional; Region: PRK13796 869304004891 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 869304004892 GTP/Mg2+ binding site [chemical binding]; other site 869304004893 G4 box; other site 869304004894 G5 box; other site 869304004895 G1 box; other site 869304004896 Switch I region; other site 869304004897 G2 box; other site 869304004898 G3 box; other site 869304004899 Switch II region; other site 869304004900 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 869304004901 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 869304004902 active site 869304004903 motif I; other site 869304004904 motif II; other site 869304004905 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 869304004906 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 869304004907 Cl binding site [ion binding]; other site 869304004908 oligomer interface [polypeptide binding]; other site 869304004909 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 869304004910 Mechanosensitive ion channel; Region: MS_channel; pfam00924 869304004911 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 869304004912 serine/threonine transporter SstT; Provisional; Region: PRK14695 869304004913 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 869304004914 Predicted membrane protein [Function unknown]; Region: COG4129 869304004915 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 869304004916 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 869304004917 MarR family; Region: MarR; pfam01047 869304004918 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 869304004919 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869304004920 catalytic residues [active] 869304004921 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 869304004922 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 869304004923 amphipathic channel; other site 869304004924 Asn-Pro-Ala signature motifs; other site 869304004926 oligoendopeptidase F; Region: pepF; TIGR00181 869304004927 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 869304004928 Zn binding site [ion binding]; other site 869304004929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 869304004930 RNA methyltransferase, RsmE family; Region: TIGR00046 869304004931 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 869304004932 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 869304004933 S-adenosylmethionine binding site [chemical binding]; other site 869304004934 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 869304004935 nudix motif; other site 869304004936 Peptidase family M50; Region: Peptidase_M50; pfam02163 869304004937 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 869304004938 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 869304004939 recombination factor protein RarA; Reviewed; Region: PRK13342 869304004940 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 869304004941 Walker A motif; other site 869304004942 ATP binding site [chemical binding]; other site 869304004943 Walker B motif; other site 869304004944 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 869304004945 arginine finger; other site 869304004946 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 869304004947 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 869304004948 Int/Topo IB signature motif; other site 869304004949 Replication initiation factor; Region: Rep_trans; pfam02486 869304004950 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 869304004951 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 869304004952 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 869304004953 substrate binding [chemical binding]; other site 869304004954 active site 869304004955 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 869304004956 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869304004957 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869304004958 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 869304004959 dimer interface [polypeptide binding]; other site 869304004960 conserved gate region; other site 869304004961 ABC-ATPase subunit interface; other site 869304004962 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 869304004963 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 869304004964 dimer interface [polypeptide binding]; other site 869304004965 conserved gate region; other site 869304004966 ABC-ATPase subunit interface; other site 869304004967 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869304004968 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869304004969 DNA binding site [nucleotide binding] 869304004970 domain linker motif; other site 869304004971 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 869304004972 dimerization interface [polypeptide binding]; other site 869304004973 ligand binding site [chemical binding]; other site 869304004974 sodium binding site [ion binding]; other site 869304004976 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 869304004977 Mga helix-turn-helix domain; Region: Mga; pfam05043 869304004978 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 869304004979 Predicted membrane protein [Function unknown]; Region: COG2261 869304004980 Small integral membrane protein [Function unknown]; Region: COG5547 869304004981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869304004983 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 869304004984 Uncharacterized conserved protein [Function unknown]; Region: COG1262 869304004985 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 869304004986 arylsulfatase; Provisional; Region: PRK13759 869304004987 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 869304004988 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869304004989 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869304004990 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 869304004991 active site 869304004992 methionine cluster; other site 869304004993 phosphorylation site [posttranslational modification] 869304004994 metal binding site [ion binding]; metal-binding site 869304004995 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 869304004996 active site 869304004997 P-loop; other site 869304004998 phosphorylation site [posttranslational modification] 869304004999 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 869304005000 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869304005001 MarR family; Region: MarR_2; pfam12802 869304005002 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869304005003 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 869304005004 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 869304005005 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869304005006 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869304005007 Coenzyme A binding pocket [chemical binding]; other site 869304005008 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 869304005009 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 869304005010 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 869304005011 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304005012 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 869304005013 non-specific DNA binding site [nucleotide binding]; other site 869304005014 salt bridge; other site 869304005015 sequence-specific DNA binding site [nucleotide binding]; other site 869304005016 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 869304005017 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 869304005018 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 869304005019 substrate binding site [chemical binding]; other site 869304005020 active site 869304005021 catalytic residues [active] 869304005022 heterodimer interface [polypeptide binding]; other site 869304005023 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 869304005024 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 869304005025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304005026 catalytic residue [active] 869304005027 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 869304005028 active site 869304005029 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 869304005030 active site 869304005031 ribulose/triose binding site [chemical binding]; other site 869304005032 phosphate binding site [ion binding]; other site 869304005033 substrate (anthranilate) binding pocket [chemical binding]; other site 869304005034 product (indole) binding pocket [chemical binding]; other site 869304005035 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 869304005036 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 869304005037 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 869304005038 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 869304005039 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 869304005040 glutamine binding [chemical binding]; other site 869304005041 catalytic triad [active] 869304005042 anthranilate synthase component I; Provisional; Region: PRK13570 869304005043 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 869304005044 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 869304005045 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869304005046 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869304005047 DNA binding site [nucleotide binding] 869304005048 domain linker motif; other site 869304005049 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 869304005050 putative dimerization interface [polypeptide binding]; other site 869304005051 putative ligand binding site [chemical binding]; other site 869304005052 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 869304005053 MgtC family; Region: MgtC; pfam02308 869304005054 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 869304005055 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 869304005056 dimer interface [polypeptide binding]; other site 869304005057 conserved gate region; other site 869304005058 putative PBP binding loops; other site 869304005059 ABC-ATPase subunit interface; other site 869304005060 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 869304005061 putative PBP binding loops; other site 869304005062 dimer interface [polypeptide binding]; other site 869304005063 ABC-ATPase subunit interface; other site 869304005064 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869304005065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304005066 Walker A/P-loop; other site 869304005067 ATP binding site [chemical binding]; other site 869304005068 Q-loop/lid; other site 869304005069 ABC transporter signature motif; other site 869304005070 Walker B; other site 869304005071 D-loop; other site 869304005072 H-loop/switch region; other site 869304005073 TOBE domain; Region: TOBE; pfam03459 869304005074 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 869304005075 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 869304005076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 869304005077 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 869304005079 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869304005080 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 869304005081 Pectate lyase; Region: Pec_lyase_C; cl01593 869304005082 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 869304005083 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 869304005084 inhibitor-cofactor binding pocket; inhibition site 869304005085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304005086 catalytic residue [active] 869304005087 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 869304005088 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869304005089 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304005090 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869304005091 Walker A/P-loop; other site 869304005092 ATP binding site [chemical binding]; other site 869304005093 Q-loop/lid; other site 869304005094 ABC transporter signature motif; other site 869304005095 Walker B; other site 869304005096 D-loop; other site 869304005097 H-loop/switch region; other site 869304005098 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304005099 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 869304005100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304005101 Walker A/P-loop; other site 869304005102 ATP binding site [chemical binding]; other site 869304005103 Q-loop/lid; other site 869304005104 ABC transporter signature motif; other site 869304005105 Walker B; other site 869304005106 D-loop; other site 869304005107 H-loop/switch region; other site 869304005109 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 869304005110 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 869304005111 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 869304005112 active site 869304005113 putative catalytic site [active] 869304005114 DNA binding site [nucleotide binding] 869304005115 putative phosphate binding site [ion binding]; other site 869304005116 metal binding site A [ion binding]; metal-binding site 869304005117 AP binding site [nucleotide binding]; other site 869304005118 metal binding site B [ion binding]; metal-binding site 869304005119 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 869304005120 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 869304005121 active site 869304005122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304005123 active site 869304005124 xanthine permease; Region: pbuX; TIGR03173 869304005125 Sulfate transporter family; Region: Sulfate_transp; pfam00916 869304005126 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 869304005128 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 869304005129 CoenzymeA binding site [chemical binding]; other site 869304005130 subunit interaction site [polypeptide binding]; other site 869304005131 PHB binding site; other site 869304005132 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 869304005133 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 869304005134 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 869304005135 galactokinase; Provisional; Region: PRK05322 869304005136 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 869304005137 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869304005138 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869304005139 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 869304005140 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869304005141 DNA binding site [nucleotide binding] 869304005142 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 869304005143 putative dimerization interface [polypeptide binding]; other site 869304005144 putative ligand binding site [chemical binding]; other site 869304005145 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 869304005146 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869304005147 catalytic Zn binding site [ion binding]; other site 869304005148 NAD(P) binding site [chemical binding]; other site 869304005149 structural Zn binding site [ion binding]; other site 869304005150 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 869304005151 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 869304005152 DNA binding residues [nucleotide binding] 869304005153 putative dimer interface [polypeptide binding]; other site 869304005154 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 869304005155 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869304005156 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869304005157 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 869304005158 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 869304005159 dimer interface [polypeptide binding]; other site 869304005160 conserved gate region; other site 869304005161 ABC-ATPase subunit interface; other site 869304005162 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 869304005163 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 869304005164 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869304005165 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304005166 Walker A/P-loop; other site 869304005167 ATP binding site [chemical binding]; other site 869304005168 Q-loop/lid; other site 869304005169 ABC transporter signature motif; other site 869304005170 Walker B; other site 869304005171 D-loop; other site 869304005172 H-loop/switch region; other site 869304005173 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 869304005174 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 869304005175 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 869304005176 Enterocin A Immunity; Region: EntA_Immun; pfam08951 869304005177 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 869304005178 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 869304005179 oligomer interface [polypeptide binding]; other site 869304005180 active site 869304005181 metal binding site [ion binding]; metal-binding site 869304005182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869304005183 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 869304005184 NAD(P) binding site [chemical binding]; other site 869304005185 active site 869304005186 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 869304005187 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 869304005188 ABC-ATPase subunit interface; other site 869304005189 dimer interface [polypeptide binding]; other site 869304005190 putative PBP binding regions; other site 869304005191 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 869304005192 ABC-ATPase subunit interface; other site 869304005193 dimer interface [polypeptide binding]; other site 869304005194 putative PBP binding regions; other site 869304005195 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 869304005196 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 869304005197 Walker A/P-loop; other site 869304005198 ATP binding site [chemical binding]; other site 869304005199 Q-loop/lid; other site 869304005200 ABC transporter signature motif; other site 869304005201 Walker B; other site 869304005202 D-loop; other site 869304005203 H-loop/switch region; other site 869304005204 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 869304005205 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 869304005206 putative ligand binding residues [chemical binding]; other site 869304005207 hypothetical protein; Validated; Region: PRK00041 869304005208 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869304005209 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 869304005210 RNA binding surface [nucleotide binding]; other site 869304005211 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 869304005212 active site 869304005213 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 869304005214 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 869304005215 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 869304005216 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 869304005217 DNA binding site [nucleotide binding] 869304005218 Int/Topo IB signature motif; other site 869304005219 active site 869304005220 catalytic residues [active] 869304005221 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 869304005222 FOG: CBS domain [General function prediction only]; Region: COG0517 869304005223 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 869304005224 active site 869304005225 metal binding site [ion binding]; metal-binding site 869304005226 homotetramer interface [polypeptide binding]; other site 869304005227 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 869304005228 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 869304005229 active site 869304005230 dimerization interface [polypeptide binding]; other site 869304005231 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 869304005232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 869304005233 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 869304005234 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 869304005235 Ca binding site [ion binding]; other site 869304005236 active site 869304005237 catalytic site [active] 869304005238 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 869304005239 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 869304005240 active site turn [active] 869304005241 phosphorylation site [posttranslational modification] 869304005242 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869304005243 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 869304005244 HPr interaction site; other site 869304005245 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869304005246 active site 869304005247 phosphorylation site [posttranslational modification] 869304005248 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304005249 DNA-binding site [nucleotide binding]; DNA binding site 869304005250 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 869304005251 UTRA domain; Region: UTRA; pfam07702 869304005253 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 869304005254 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 869304005255 Walker A/P-loop; other site 869304005256 ATP binding site [chemical binding]; other site 869304005257 Q-loop/lid; other site 869304005258 ABC transporter signature motif; other site 869304005259 Walker B; other site 869304005260 D-loop; other site 869304005261 H-loop/switch region; other site 869304005262 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 869304005263 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 869304005264 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 869304005265 Walker A/P-loop; other site 869304005266 ATP binding site [chemical binding]; other site 869304005267 Q-loop/lid; other site 869304005268 ABC transporter signature motif; other site 869304005269 Walker B; other site 869304005270 D-loop; other site 869304005271 H-loop/switch region; other site 869304005272 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 869304005273 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 869304005274 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 869304005275 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 869304005276 dimer interface [polypeptide binding]; other site 869304005277 conserved gate region; other site 869304005278 putative PBP binding loops; other site 869304005279 ABC-ATPase subunit interface; other site 869304005280 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 869304005281 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 869304005282 dimer interface [polypeptide binding]; other site 869304005283 conserved gate region; other site 869304005284 putative PBP binding loops; other site 869304005285 ABC-ATPase subunit interface; other site 869304005286 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 869304005287 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 869304005288 peptide binding site [polypeptide binding]; other site 869304005289 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 869304005290 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 869304005291 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 869304005292 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 869304005293 active site 869304005294 homodimer interface [polypeptide binding]; other site 869304005295 catalytic site [active] 869304005296 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869304005297 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 869304005298 dimer interface [polypeptide binding]; other site 869304005299 conserved gate region; other site 869304005300 putative PBP binding loops; other site 869304005301 ABC-ATPase subunit interface; other site 869304005302 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 869304005303 dimer interface [polypeptide binding]; other site 869304005304 conserved gate region; other site 869304005305 putative PBP binding loops; other site 869304005306 ABC-ATPase subunit interface; other site 869304005307 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869304005308 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869304005309 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869304005310 Melibiase; Region: Melibiase; pfam02065 869304005311 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 869304005312 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869304005313 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869304005314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869304005315 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 869304005316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304005317 DNA-binding site [nucleotide binding]; DNA binding site 869304005318 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 869304005319 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 869304005320 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 869304005321 TRAM domain; Region: TRAM; cl01282 869304005322 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 869304005323 S-adenosylmethionine binding site [chemical binding]; other site 869304005324 recombination regulator RecX; Provisional; Region: recX; PRK14135 869304005325 hypothetical protein; Provisional; Region: PRK13662 869304005327 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869304005328 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 869304005329 S-adenosylmethionine binding site [chemical binding]; other site 869304005330 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 869304005331 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 869304005332 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 869304005333 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 869304005334 ring oligomerisation interface [polypeptide binding]; other site 869304005335 ATP/Mg binding site [chemical binding]; other site 869304005336 stacking interactions; other site 869304005337 hinge regions; other site 869304005338 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 869304005339 oligomerisation interface [polypeptide binding]; other site 869304005340 mobile loop; other site 869304005341 roof hairpin; other site 869304005342 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 869304005343 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 869304005344 dimer interface [polypeptide binding]; other site 869304005345 ssDNA binding site [nucleotide binding]; other site 869304005346 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869304005347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869304005348 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 869304005349 NAD(P) binding site [chemical binding]; other site 869304005350 active site 869304005351 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 869304005352 putative tRNA-binding site [nucleotide binding]; other site 869304005353 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 869304005354 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869304005355 catalytic residues [active] 869304005356 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304005357 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 869304005358 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869304005359 LytTr DNA-binding domain; Region: LytTR; pfam04397 869304005360 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 869304005361 active site 869304005362 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 869304005363 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 869304005364 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869304005365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304005366 Walker A/P-loop; other site 869304005367 ATP binding site [chemical binding]; other site 869304005368 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869304005369 Walker A/P-loop; other site 869304005370 ATP binding site [chemical binding]; other site 869304005371 Q-loop/lid; other site 869304005372 ABC transporter signature motif; other site 869304005373 Walker B; other site 869304005374 D-loop; other site 869304005375 H-loop/switch region; other site 869304005377 MarR family; Region: MarR_2; pfam12802 869304005378 Transcriptional regulators [Transcription]; Region: MarR; COG1846 869304005379 hypothetical protein; Provisional; Region: PRK12378 869304005380 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 869304005381 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 869304005382 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 869304005385 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 869304005386 Domain of unknown function (DUF955); Region: DUF955; cl01076 869304005387 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304005388 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 869304005389 non-specific DNA binding site [nucleotide binding]; other site 869304005390 salt bridge; other site 869304005391 sequence-specific DNA binding site [nucleotide binding]; other site 869304005392 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304005393 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 869304005394 amidase catalytic site [active] 869304005395 Zn binding residues [ion binding]; other site 869304005396 substrate binding site [chemical binding]; other site 869304005397 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304005398 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304005399 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 869304005400 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 869304005401 recombinase A; Provisional; Region: recA; PRK09354 869304005402 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 869304005403 hexamer interface [polypeptide binding]; other site 869304005404 Walker A motif; other site 869304005405 ATP binding site [chemical binding]; other site 869304005406 Walker B motif; other site 869304005407 competence damage-inducible protein A; Provisional; Region: PRK00549 869304005408 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 869304005409 putative MPT binding site; other site 869304005410 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 869304005411 Transcriptional regulator [Transcription]; Region: LytR; COG1316 869304005412 putative acetyltransferase YhhY; Provisional; Region: PRK10140 869304005413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869304005414 Coenzyme A binding pocket [chemical binding]; other site 869304005415 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 869304005416 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304005417 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 869304005418 non-specific DNA binding site [nucleotide binding]; other site 869304005419 salt bridge; other site 869304005420 sequence-specific DNA binding site [nucleotide binding]; other site 869304005421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869304005422 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869304005423 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304005424 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869304005425 Walker A/P-loop; other site 869304005426 ATP binding site [chemical binding]; other site 869304005427 Q-loop/lid; other site 869304005428 ABC transporter signature motif; other site 869304005429 Walker B; other site 869304005430 D-loop; other site 869304005431 H-loop/switch region; other site 869304005432 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 869304005433 active site 869304005434 multimer interface [polypeptide binding]; other site 869304005435 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 869304005436 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 869304005437 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 869304005438 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 869304005439 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 869304005440 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 869304005441 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 869304005442 G-loop; other site 869304005443 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 869304005444 DNA binding site [nucleotide binding] 869304005445 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 869304005446 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 869304005447 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 869304005448 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 869304005449 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 869304005450 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 869304005451 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 869304005452 RPB1 interaction site [polypeptide binding]; other site 869304005453 RPB10 interaction site [polypeptide binding]; other site 869304005454 RPB11 interaction site [polypeptide binding]; other site 869304005455 RPB3 interaction site [polypeptide binding]; other site 869304005456 RPB12 interaction site [polypeptide binding]; other site 869304005457 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 869304005458 Domain of unknown function DUF21; Region: DUF21; pfam01595 869304005459 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 869304005460 Transporter associated domain; Region: CorC_HlyC; smart01091 869304005461 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 869304005462 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 869304005463 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 869304005464 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 869304005465 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 869304005466 hinge; other site 869304005467 active site 869304005468 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 869304005469 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 869304005470 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 869304005471 protein binding site [polypeptide binding]; other site 869304005472 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 869304005473 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 869304005474 active site 869304005475 (T/H)XGH motif; other site 869304005476 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 869304005477 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 869304005478 S-adenosylmethionine binding site [chemical binding]; other site 869304005479 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 869304005480 dimer interface [polypeptide binding]; other site 869304005481 active site 869304005482 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 869304005483 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 869304005485 acylphosphatase; Provisional; Region: PRK14434 869304005486 OxaA-like protein precursor; Provisional; Region: PRK02463 869304005487 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 869304005488 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 869304005489 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 869304005490 FeS/SAM binding site; other site 869304005491 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 869304005492 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 869304005493 active site 869304005494 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869304005495 substrate binding site [chemical binding]; other site 869304005496 catalytic residues [active] 869304005497 dimer interface [polypeptide binding]; other site 869304005498 pur operon repressor; Provisional; Region: PRK09213 869304005499 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 869304005500 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304005501 active site 869304005502 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 869304005503 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 869304005504 generic binding surface II; other site 869304005505 generic binding surface I; other site 869304005506 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869304005507 Zn2+ binding site [ion binding]; other site 869304005508 Mg2+ binding site [ion binding]; other site 869304005509 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 869304005510 RmuC family; Region: RmuC; pfam02646 869304005511 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 869304005512 Thiamine pyrophosphokinase; Region: TPK; cd07995 869304005513 active site 869304005514 dimerization interface [polypeptide binding]; other site 869304005515 thiamine binding site [chemical binding]; other site 869304005516 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 869304005517 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 869304005518 substrate binding site [chemical binding]; other site 869304005519 hexamer interface [polypeptide binding]; other site 869304005520 metal binding site [ion binding]; metal-binding site 869304005521 GTPase RsgA; Reviewed; Region: PRK00098 869304005522 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 869304005523 RNA binding site [nucleotide binding]; other site 869304005524 homodimer interface [polypeptide binding]; other site 869304005525 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 869304005526 GTPase/Zn-binding domain interface [polypeptide binding]; other site 869304005527 GTP/Mg2+ binding site [chemical binding]; other site 869304005528 G4 box; other site 869304005529 G5 box; other site 869304005530 G1 box; other site 869304005531 Switch I region; other site 869304005532 G2 box; other site 869304005533 G3 box; other site 869304005534 Switch II region; other site 869304005535 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 869304005536 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 869304005537 S-adenosylmethionine binding site [chemical binding]; other site 869304005538 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869304005539 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869304005540 Walker A/P-loop; other site 869304005541 ATP binding site [chemical binding]; other site 869304005542 Q-loop/lid; other site 869304005543 ABC transporter signature motif; other site 869304005544 Walker B; other site 869304005545 D-loop; other site 869304005546 H-loop/switch region; other site 869304005547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869304005548 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869304005549 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 869304005550 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304005551 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 869304005552 non-specific DNA binding site [nucleotide binding]; other site 869304005553 salt bridge; other site 869304005554 sequence-specific DNA binding site [nucleotide binding]; other site 869304005555 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 869304005556 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 869304005557 putative active site [active] 869304005558 putative metal binding site [ion binding]; other site 869304005559 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 869304005560 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 869304005561 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 869304005562 active site 869304005563 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 869304005564 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 869304005565 aminotransferase AlaT; Validated; Region: PRK09265 869304005566 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 869304005567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304005568 homodimer interface [polypeptide binding]; other site 869304005569 catalytic residue [active] 869304005570 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 869304005571 Ligand Binding Site [chemical binding]; other site 869304005572 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 869304005573 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869304005574 active site 869304005575 motif I; other site 869304005576 motif II; other site 869304005577 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 869304005578 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 869304005579 putative nucleotide binding site [chemical binding]; other site 869304005580 putative metal binding site [ion binding]; other site 869304005581 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 869304005582 active site 869304005583 homotetramer interface [polypeptide binding]; other site 869304005584 homodimer interface [polypeptide binding]; other site 869304005585 catabolite control protein A; Region: ccpA; TIGR01481 869304005586 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869304005587 DNA binding site [nucleotide binding] 869304005588 domain linker motif; other site 869304005589 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 869304005590 dimerization interface [polypeptide binding]; other site 869304005591 effector binding site; other site 869304005592 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 869304005593 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 869304005594 active site 869304005595 phosphorylation site [posttranslational modification] 869304005596 intermolecular recognition site; other site 869304005597 dimerization interface [polypeptide binding]; other site 869304005598 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 869304005599 DNA binding residues [nucleotide binding] 869304005600 dimerization interface [polypeptide binding]; other site 869304005601 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 869304005602 Histidine kinase; Region: HisKA_3; pfam07730 869304005603 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 869304005604 ATP binding site [chemical binding]; other site 869304005605 Mg2+ binding site [ion binding]; other site 869304005606 G-X-G motif; other site 869304005607 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 869304005608 ABC-2 type transporter; Region: ABC2_membrane; cl17235 869304005609 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 869304005610 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869304005611 Walker A/P-loop; other site 869304005612 ATP binding site [chemical binding]; other site 869304005613 Q-loop/lid; other site 869304005614 ABC transporter signature motif; other site 869304005615 Walker B; other site 869304005616 D-loop; other site 869304005617 H-loop/switch region; other site 869304005618 manually curated to include N-terminal signal sequence 869304005619 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 869304005620 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 869304005621 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 869304005622 putative homodimer interface [polypeptide binding]; other site 869304005623 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 869304005624 heterodimer interface [polypeptide binding]; other site 869304005625 homodimer interface [polypeptide binding]; other site 869304005626 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 869304005627 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 869304005628 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 869304005629 Transglycosylase; Region: Transgly; pfam00912 869304005630 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869304005631 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869304005632 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869304005633 active site 869304005634 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 869304005635 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 869304005636 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 869304005637 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 869304005638 FtsX-like permease family; Region: FtsX; pfam02687 869304005640 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 869304005641 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 869304005642 dimerization interface [polypeptide binding]; other site 869304005643 active site 869304005644 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 869304005645 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 869304005647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 869304005648 Walker A/P-loop; other site 869304005649 ATP binding site [chemical binding]; other site 869304005650 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869304005651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869304005652 DNA-binding site [nucleotide binding]; DNA binding site 869304005653 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 869304005654 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869304005655 beta-galactosidase; Region: BGL; TIGR03356 869304005656 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869304005657 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869304005658 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 869304005659 active site 869304005660 P-loop; other site 869304005661 phosphorylation site [posttranslational modification] 869304005662 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 869304005663 methionine cluster; other site 869304005664 active site 869304005665 phosphorylation site [posttranslational modification] 869304005666 metal binding site [ion binding]; metal-binding site 869304005667 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 869304005668 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 869304005669 putative catalytic cysteine [active] 869304005670 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 869304005671 putative active site [active] 869304005672 metal binding site [ion binding]; metal-binding site 869304005673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 869304005674 MORN repeat; Region: MORN; cl14787 869304005675 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 869304005676 Low molecular weight phosphatase family; Region: LMWPc; cd00115 869304005677 active site 869304005678 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 869304005679 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 869304005680 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 869304005681 TPP-binding site [chemical binding]; other site 869304005682 dimer interface [polypeptide binding]; other site 869304005683 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 869304005684 PYR/PP interface [polypeptide binding]; other site 869304005685 dimer interface [polypeptide binding]; other site 869304005686 TPP binding site [chemical binding]; other site 869304005687 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869304005688 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 869304005689 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 869304005690 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869304005691 PRD domain; Region: PRD; pfam00874 869304005692 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 869304005693 active site 869304005694 P-loop; other site 869304005695 phosphorylation site [posttranslational modification] 869304005696 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 869304005697 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 869304005698 intersubunit interface [polypeptide binding]; other site 869304005699 active site 869304005700 Zn2+ binding site [ion binding]; other site 869304005701 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 869304005702 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 869304005703 AP (apurinic/apyrimidinic) site pocket; other site 869304005704 DNA interaction; other site 869304005705 Metal-binding active site; metal-binding site 869304005706 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 869304005707 active site 869304005708 dimer interface [polypeptide binding]; other site 869304005709 magnesium binding site [ion binding]; other site 869304005710 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 869304005711 active site 869304005712 phosphorylation site [posttranslational modification] 869304005713 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 869304005714 active site 869304005715 P-loop; other site 869304005716 phosphorylation site [posttranslational modification] 869304005717 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 869304005718 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 869304005719 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 869304005720 G-X-X-G motif; other site 869304005721 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 869304005722 RxxxH motif; other site 869304005723 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 869304005724 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 869304005725 ribonuclease P; Reviewed; Region: rnpA; PRK00499 869304005726 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 869304005727 propionate/acetate kinase; Provisional; Region: PRK12379 869304005728 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 869304005729 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 869304005730 S-adenosylmethionine binding site [chemical binding]; other site 869304005732 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 869304005733 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 869304005734 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 869304005735 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 869304005736 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 869304005737 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 869304005738 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 869304005739 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 869304005740 Walker A motif; other site 869304005741 ATP binding site [chemical binding]; other site 869304005742 Walker B motif; other site 869304005743 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 869304005744 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 869304005745 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869304005746 catalytic Zn binding site [ion binding]; other site 869304005747 structural Zn binding site [ion binding]; other site 869304005748 NAD(P) binding site [chemical binding]; other site 869304005749 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 869304005750 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 869304005751 active site 869304005752 dimer interface [polypeptide binding]; other site 869304005753 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 869304005754 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 869304005755 catalytic triad [active] 869304005756 catalytic triad [active] 869304005757 oxyanion hole [active] 869304005758 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 869304005759 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 869304005760 Predicted integral membrane protein [Function unknown]; Region: COG5523 869304005762 Predicted membrane protein [Function unknown]; Region: COG3759 869304005763 Transcriptional regulators [Transcription]; Region: MarR; COG1846 869304005764 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 869304005765 putative DNA binding site [nucleotide binding]; other site 869304005766 putative Zn2+ binding site [ion binding]; other site 869304005767 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 869304005768 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 869304005769 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 869304005770 motif II; other site 869304005771 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 869304005772 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 869304005773 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 869304005774 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 869304005775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304005776 catalytic residue [active] 869304005777 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 869304005778 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 869304005779 active site 869304005780 catalytic motif [active] 869304005781 Zn binding site [ion binding]; other site 869304005782 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 869304005783 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 869304005784 active site 869304005785 HIGH motif; other site 869304005786 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 869304005787 active site 869304005788 KMSKS motif; other site 869304005789 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 869304005790 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 869304005791 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 869304005792 active site 869304005793 dimer interface [polypeptide binding]; other site 869304005794 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 869304005795 dimer interface [polypeptide binding]; other site 869304005796 active site 869304005797 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 869304005798 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 869304005799 catalytic triad [active] 869304005800 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869304005801 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304005802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304005803 Walker A/P-loop; other site 869304005804 ATP binding site [chemical binding]; other site 869304005805 Q-loop/lid; other site 869304005806 ABC transporter signature motif; other site 869304005807 Walker B; other site 869304005808 D-loop; other site 869304005809 H-loop/switch region; other site 869304005811 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869304005812 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869304005813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304005814 Walker A/P-loop; other site 869304005815 ATP binding site [chemical binding]; other site 869304005816 Q-loop/lid; other site 869304005817 ABC transporter signature motif; other site 869304005818 Walker B; other site 869304005819 D-loop; other site 869304005820 H-loop/switch region; other site 869304005821 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 869304005822 MutS domain I; Region: MutS_I; pfam01624 869304005823 MutS domain II; Region: MutS_II; pfam05188 869304005824 MutS domain III; Region: MutS_III; pfam05192 869304005825 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 869304005826 Walker A/P-loop; other site 869304005827 ATP binding site [chemical binding]; other site 869304005828 Q-loop/lid; other site 869304005829 ABC transporter signature motif; other site 869304005830 Walker B; other site 869304005831 D-loop; other site 869304005832 H-loop/switch region; other site 869304005833 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869304005834 arginine repressor; Region: argR_whole; TIGR01529 869304005835 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869304005836 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 869304005837 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 869304005838 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 869304005839 active site 869304005840 HIGH motif; other site 869304005841 KMSK motif region; other site 869304005842 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 869304005843 tRNA binding surface [nucleotide binding]; other site 869304005844 anticodon binding site; other site 869304005846 Uncharacterized conserved protein [Function unknown]; Region: COG3542 869304005847 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304005848 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 869304005849 active site 869304005850 phosphorylation site [posttranslational modification] 869304005851 intermolecular recognition site; other site 869304005852 dimerization interface [polypeptide binding]; other site 869304005853 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 869304005854 DNA binding site [nucleotide binding] 869304005855 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 869304005856 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 869304005857 dimer interface [polypeptide binding]; other site 869304005858 phosphorylation site [posttranslational modification] 869304005859 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 869304005860 ATP binding site [chemical binding]; other site 869304005861 G-X-G motif; other site 869304005862 PBP superfamily domain; Region: PBP_like_2; cl17296 869304005863 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 869304005864 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 869304005865 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 869304005866 dimer interface [polypeptide binding]; other site 869304005867 conserved gate region; other site 869304005868 putative PBP binding loops; other site 869304005869 ABC-ATPase subunit interface; other site 869304005870 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 869304005871 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 869304005872 dimer interface [polypeptide binding]; other site 869304005873 conserved gate region; other site 869304005874 putative PBP binding loops; other site 869304005875 ABC-ATPase subunit interface; other site 869304005876 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 869304005877 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869304005878 Walker A/P-loop; other site 869304005879 ATP binding site [chemical binding]; other site 869304005880 Q-loop/lid; other site 869304005881 ABC transporter signature motif; other site 869304005882 Walker B; other site 869304005883 D-loop; other site 869304005884 H-loop/switch region; other site 869304005885 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 869304005886 PhoU domain; Region: PhoU; pfam01895 869304005887 PhoU domain; Region: PhoU; pfam01895 869304005889 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869304005890 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 869304005891 non-specific DNA binding site [nucleotide binding]; other site 869304005892 salt bridge; other site 869304005893 sequence-specific DNA binding site [nucleotide binding]; other site 869304005894 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 869304005895 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 869304005896 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 869304005897 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 869304005898 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 869304005899 active site 869304005900 tetramer interface; other site 869304005901 Rhomboid family; Region: Rhomboid; pfam01694 869304005902 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 869304005903 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 869304005904 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 869304005905 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 869304005906 metal binding site [ion binding]; metal-binding site 869304005907 putative dimer interface [polypeptide binding]; other site 869304005908 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 869304005909 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 869304005910 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 869304005911 trimer interface [polypeptide binding]; other site 869304005912 active site 869304005913 substrate binding site [chemical binding]; other site 869304005914 CoA binding site [chemical binding]; other site 869304005916 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 869304005917 Transglycosylase; Region: Transgly; pfam00912 869304005918 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869304005919 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 869304005920 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 869304005921 active site 869304005922 HIGH motif; other site 869304005923 dimer interface [polypeptide binding]; other site 869304005924 KMSKS motif; other site 869304005925 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 869304005926 RNA binding surface [nucleotide binding]; other site 869304005927 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 869304005928 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869304005929 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 869304005930 motif II; other site 869304005931 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 869304005932 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 869304005933 S-adenosylmethionine binding site [chemical binding]; other site 869304005934 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 869304005935 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 869304005936 4-alpha-glucanotransferase; Provisional; Region: PRK14508 869304005937 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 869304005938 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869304005940 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869304005941 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 869304005942 dimer interface [polypeptide binding]; other site 869304005943 conserved gate region; other site 869304005944 putative PBP binding loops; other site 869304005945 ABC-ATPase subunit interface; other site 869304005946 Predicted integral membrane protein [Function unknown]; Region: COG5521 869304005947 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869304005948 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869304005949 DNA binding site [nucleotide binding] 869304005950 domain linker motif; other site 869304005951 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 869304005952 putative dimerization interface [polypeptide binding]; other site 869304005953 putative ligand binding site [chemical binding]; other site 869304005954 Uncharacterized conserved protein [Function unknown]; Region: COG1284 869304005955 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869304005956 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869304005957 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 869304005958 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 869304005959 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 869304005960 dimer interface [polypeptide binding]; other site 869304005961 anticodon binding site; other site 869304005962 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 869304005963 homodimer interface [polypeptide binding]; other site 869304005964 motif 1; other site 869304005965 active site 869304005966 motif 2; other site 869304005967 GAD domain; Region: GAD; pfam02938 869304005968 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 869304005969 motif 3; other site 869304005970 CAAX protease self-immunity; Region: Abi; pfam02517 869304005971 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 869304005972 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 869304005973 non-specific DNA binding site [nucleotide binding]; other site 869304005974 salt bridge; other site 869304005975 sequence-specific DNA binding site [nucleotide binding]; other site 869304005976 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 869304005977 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 869304005978 dimer interface [polypeptide binding]; other site 869304005979 motif 1; other site 869304005980 active site 869304005981 motif 2; other site 869304005982 motif 3; other site 869304005983 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 869304005984 anticodon binding site; other site 869304005985 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 869304005986 non-specific DNA binding site [nucleotide binding]; other site 869304005987 salt bridge; other site 869304005988 sequence-specific DNA binding site [nucleotide binding]; other site 869304005989 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 869304005990 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 869304005991 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 869304005992 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 869304005993 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 869304005994 PYR/PP interface [polypeptide binding]; other site 869304005995 dimer interface [polypeptide binding]; other site 869304005996 TPP binding site [chemical binding]; other site 869304005997 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869304005998 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 869304005999 TPP-binding site [chemical binding]; other site 869304006000 dimer interface [polypeptide binding]; other site 869304006001 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 869304006002 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 869304006003 active site 869304006004 P-loop; other site 869304006005 phosphorylation site [posttranslational modification] 869304006006 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869304006007 PRD domain; Region: PRD; pfam00874 869304006008 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 869304006009 active site 869304006010 P-loop; other site 869304006011 phosphorylation site [posttranslational modification] 869304006012 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 869304006013 active site 869304006014 phosphorylation site [posttranslational modification] 869304006015 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 869304006016 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 869304006017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 869304006018 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 869304006019 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 869304006020 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 869304006021 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 869304006022 putative active site [active] 869304006023 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869304006024 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869304006025 nucleotide binding site [chemical binding]; other site 869304006026 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 869304006027 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 869304006028 active site 869304006029 metal binding site [ion binding]; metal-binding site 869304006030 homodimer interface [polypeptide binding]; other site 869304006031 catalytic site [active] 869304006032 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 869304006033 Uncharacterized conserved protein [Function unknown]; Region: COG3538 869304006034 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 869304006035 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 869304006036 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 869304006037 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 869304006038 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 869304006039 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869304006040 arginine deiminase; Provisional; Region: PRK01388 869304006041 ornithine carbamoyltransferase; Validated; Region: PRK02102 869304006042 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 869304006043 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 869304006044 carbamate kinase; Reviewed; Region: PRK12686 869304006045 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 869304006046 putative substrate binding site [chemical binding]; other site 869304006047 nucleotide binding site [chemical binding]; other site 869304006048 nucleotide binding site [chemical binding]; other site 869304006049 homodimer interface [polypeptide binding]; other site 869304006050 Predicted membrane protein [Function unknown]; Region: COG1288 869304006051 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 869304006052 hypothetical protein; Provisional; Region: PRK07205 869304006053 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 869304006054 active site 869304006055 metal binding site [ion binding]; metal-binding site 869304006057 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 869304006058 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 869304006059 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 869304006060 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 869304006061 dimer interface [polypeptide binding]; other site 869304006062 active site 869304006063 metal binding site [ion binding]; metal-binding site 869304006064 L-fucose isomerase; Provisional; Region: fucI; PRK10991 869304006065 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 869304006066 hexamer (dimer of trimers) interface [polypeptide binding]; other site 869304006067 trimer interface [polypeptide binding]; other site 869304006068 substrate binding site [chemical binding]; other site 869304006069 Mn binding site [ion binding]; other site 869304006070 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 869304006071 intersubunit interface [polypeptide binding]; other site 869304006072 active site 869304006073 Zn2+ binding site [ion binding]; other site 869304006074 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 869304006075 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 869304006076 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 869304006077 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 869304006078 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869304006079 Melibiase; Region: Melibiase; pfam02065 869304006080 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869304006081 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 869304006082 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 869304006083 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869304006084 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 869304006085 dimer interface [polypeptide binding]; other site 869304006086 conserved gate region; other site 869304006087 putative PBP binding loops; other site 869304006088 ABC-ATPase subunit interface; other site 869304006089 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869304006090 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 869304006091 dimer interface [polypeptide binding]; other site 869304006092 conserved gate region; other site 869304006093 putative PBP binding loops; other site 869304006094 ABC-ATPase subunit interface; other site 869304006095 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869304006096 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869304006097 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 869304006098 N- and C-terminal domain interface [polypeptide binding]; other site 869304006099 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 869304006100 active site 869304006101 putative catalytic site [active] 869304006102 metal binding site [ion binding]; metal-binding site 869304006103 ATP binding site [chemical binding]; other site 869304006104 carbohydrate binding site [chemical binding]; other site 869304006105 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869304006106 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 869304006107 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869304006108 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869304006109 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 869304006110 metal binding site [ion binding]; metal-binding site 869304006111 YodA lipocalin-like domain; Region: YodA; pfam09223 869304006112 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 869304006113 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 869304006114 ABC-ATPase subunit interface; other site 869304006115 dimer interface [polypeptide binding]; other site 869304006116 putative PBP binding regions; other site 869304006117 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869304006118 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 869304006119 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 869304006120 putative DNA binding site [nucleotide binding]; other site 869304006121 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 869304006122 DltD N-terminal region; Region: DltD_N; pfam04915 869304006123 DltD central region; Region: DltD_M; pfam04918 869304006124 DltD C-terminal region; Region: DltD_C; pfam04914 869304006125 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 869304006126 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 869304006127 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 869304006128 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 869304006129 acyl-activating enzyme (AAE) consensus motif; other site 869304006130 AMP binding site [chemical binding]; other site 869304006131 H+ Antiporter protein; Region: 2A0121; TIGR00900 869304006132 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 869304006133 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 869304006134 putative active site [active] 869304006135 putative NTP binding site [chemical binding]; other site 869304006136 putative nucleic acid binding site [nucleotide binding]; other site 869304006137 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 869304006138 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 869304006139 amphipathic channel; other site 869304006140 Asn-Pro-Ala signature motifs; other site 869304006141 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 869304006142 glycerol kinase; Provisional; Region: glpK; PRK00047 869304006143 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 869304006144 N- and C-terminal domain interface [polypeptide binding]; other site 869304006145 active site 869304006146 MgATP binding site [chemical binding]; other site 869304006147 catalytic site [active] 869304006148 metal binding site [ion binding]; metal-binding site 869304006149 glycerol binding site [chemical binding]; other site 869304006150 homotetramer interface [polypeptide binding]; other site 869304006151 homodimer interface [polypeptide binding]; other site 869304006152 FBP binding site [chemical binding]; other site 869304006153 protein IIAGlc interface [polypeptide binding]; other site 869304006154 Mga helix-turn-helix domain; Region: Mga; pfam05043 869304006155 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 869304006156 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 869304006157 dimerization interface [polypeptide binding]; other site 869304006158 domain crossover interface; other site 869304006159 redox-dependent activation switch; other site 869304006160 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 869304006161 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 869304006162 FMN binding site [chemical binding]; other site 869304006163 active site 869304006164 catalytic residues [active] 869304006165 substrate binding site [chemical binding]; other site 869304006166 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869304006167 RICH domain; Region: RICH; pfam05062 869304006168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 869304006169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869304006170 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 869304006171 dimerization interface [polypeptide binding]; other site 869304006172 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 869304006173 dimer interface [polypeptide binding]; other site 869304006174 phosphorylation site [posttranslational modification] 869304006175 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 869304006176 ATP binding site [chemical binding]; other site 869304006177 Mg2+ binding site [ion binding]; other site 869304006178 G-X-G motif; other site 869304006179 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869304006180 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 869304006181 active site 869304006182 phosphorylation site [posttranslational modification] 869304006183 intermolecular recognition site; other site 869304006184 dimerization interface [polypeptide binding]; other site 869304006185 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 869304006186 DNA binding site [nucleotide binding] 869304006187 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 869304006188 Clp amino terminal domain; Region: Clp_N; pfam02861 869304006189 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 869304006190 Walker A motif; other site 869304006191 ATP binding site [chemical binding]; other site 869304006192 Walker B motif; other site 869304006193 arginine finger; other site 869304006194 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 869304006195 Walker A motif; other site 869304006196 ATP binding site [chemical binding]; other site 869304006197 Walker B motif; other site 869304006198 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869304006199 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 869304006200 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 869304006201 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 869304006202 Walker A/P-loop; other site 869304006203 ATP binding site [chemical binding]; other site 869304006204 Q-loop/lid; other site 869304006205 ABC transporter signature motif; other site 869304006206 Walker B; other site 869304006207 D-loop; other site 869304006208 H-loop/switch region; other site 869304006209 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 869304006210 NMT1/THI5 like; Region: NMT1; pfam09084 869304006211 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 869304006212 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 869304006213 Uncharacterized conserved protein [Function unknown]; Region: COG0011 869304006214 Surface antigen [General function prediction only]; Region: COG3942 869304006215 CHAP domain; Region: CHAP; pfam05257 869304006216 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869304006217 Bacterial SH3 domain; Region: SH3_5; pfam08460 869304006218 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869304006219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 869304006220 replicative DNA helicase; Provisional; Region: PRK05748 869304006221 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 869304006222 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 869304006223 Walker A motif; other site 869304006224 ATP binding site [chemical binding]; other site 869304006225 Walker B motif; other site 869304006226 DNA binding loops [nucleotide binding] 869304006227 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 869304006228 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 869304006229 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 869304006230 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 869304006231 DHH family; Region: DHH; pfam01368 869304006232 DHHA1 domain; Region: DHHA1; pfam02272 869304006233 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 869304006234 30S subunit binding site; other site 869304006235 comF family protein; Region: comF; TIGR00201 869304006236 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869304006237 active site 869304006238 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 869304006239 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 869304006240 ATP binding site [chemical binding]; other site 869304006241 putative Mg++ binding site [ion binding]; other site 869304006242 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 869304006243 nucleotide binding region [chemical binding]; other site 869304006244 ATP-binding site [chemical binding]; other site 869304006245 Uncharacterized conserved protein [Function unknown]; Region: COG1739 869304006246 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 869304006247 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 869304006248 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 869304006249 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 869304006250 dimer interface [polypeptide binding]; other site 869304006251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869304006252 catalytic residue [active] 869304006256 elongation factor Ts; Provisional; Region: tsf; PRK09377 869304006257 UBA/TS-N domain; Region: UBA; pfam00627 869304006258 Elongation factor TS; Region: EF_TS; pfam00889 869304006259 Elongation factor TS; Region: EF_TS; pfam00889 869304006260 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 869304006261 rRNA interaction site [nucleotide binding]; other site 869304006262 S8 interaction site; other site 869304006263 putative laminin-1 binding site; other site 869304006264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 869304006265 Septum formation initiator; Region: DivIC; cl17659 869304006266 Surface antigen [General function prediction only]; Region: COG3942 869304006267 CHAP domain; Region: CHAP; pfam05257 869304006268 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 869304006269 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 869304006270 rod shape-determining protein MreC; Region: MreC; pfam04085 869304006271 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869304006272 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 869304006273 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869304006274 Walker A/P-loop; other site 869304006275 ATP binding site [chemical binding]; other site 869304006276 Q-loop/lid; other site 869304006277 ABC transporter signature motif; other site 869304006278 Walker B; other site 869304006279 D-loop; other site 869304006280 H-loop/switch region; other site 869304006281 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 869304006282 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869304006283 Walker A/P-loop; other site 869304006284 ATP binding site [chemical binding]; other site 869304006285 Q-loop/lid; other site 869304006286 ABC transporter signature motif; other site 869304006287 Walker B; other site 869304006288 D-loop; other site 869304006289 H-loop/switch region; other site 869304006290 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 869304006291 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 869304006292 Helix-turn-helix domain; Region: HTH_25; pfam13413 869304006293 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 869304006294 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 869304006295 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 869304006296 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 869304006297 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 869304006298 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 869304006299 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 869304006300 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 869304006301 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 869304006302 Walker A/P-loop; other site 869304006303 ATP binding site [chemical binding]; other site 869304006304 Q-loop/lid; other site 869304006305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869304006306 ABC transporter signature motif; other site 869304006307 Walker B; other site 869304006308 D-loop; other site 869304006309 H-loop/switch region; other site 869304006310 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 869304006311 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 869304006312 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 869304006313 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 869304006314 active site 869304006315 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 869304006316 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 869304006317 active site 869304006318 HIGH motif; other site 869304006319 dimer interface [polypeptide binding]; other site 869304006320 KMSKS motif; other site 869304006321 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 869304006322 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304006323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304006324 ABC transporter; Region: ABC_tran_2; pfam12848 869304006325 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869304006326 Predicted membrane protein [Function unknown]; Region: COG4485 869304006327 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 869304006328 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 869304006329 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869304006330 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869304006331 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869304006332 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 869304006333 active site 869304006334 phosphorylation site [posttranslational modification] 869304006335 intermolecular recognition site; other site 869304006336 dimerization interface [polypeptide binding]; other site 869304006337 LytTr DNA-binding domain; Region: LytTR; pfam04397 869304006338 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869304006339 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 869304006340 COMC family; Region: ComC; pfam03047 869304006341 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 869304006342 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 869304006343 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 869304006344 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 869304006345 protein binding site [polypeptide binding]; other site 869304006346 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 869304006347 ParB-like nuclease domain; Region: ParBc; pfam02195 869304006348 KorB domain; Region: KorB; pfam08535