-- dump date 20140620_085148 -- class Genbank::misc_feature -- table misc_feature_note -- id note 869307000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 869307000002 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 869307000003 Walker A motif; other site 869307000004 ATP binding site [chemical binding]; other site 869307000005 Walker B motif; other site 869307000006 arginine finger; other site 869307000007 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 869307000008 DnaA box-binding interface [nucleotide binding]; other site 869307000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 869307000010 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 869307000011 putative DNA binding surface [nucleotide binding]; other site 869307000012 dimer interface [polypeptide binding]; other site 869307000013 beta-clamp/clamp loader binding surface; other site 869307000014 beta-clamp/translesion DNA polymerase binding surface; other site 869307000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 869307000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 869307000017 YchF GTPase; Region: YchF; cd01900 869307000018 G1 box; other site 869307000019 GTP/Mg2+ binding site [chemical binding]; other site 869307000020 Switch I region; other site 869307000021 G2 box; other site 869307000022 Switch II region; other site 869307000023 G3 box; other site 869307000024 G4 box; other site 869307000025 G5 box; other site 869307000026 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 869307000027 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 869307000028 putative active site [active] 869307000029 catalytic residue [active] 869307000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 869307000031 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 869307000032 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 869307000033 ATP binding site [chemical binding]; other site 869307000034 putative Mg++ binding site [ion binding]; other site 869307000035 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 869307000036 nucleotide binding region [chemical binding]; other site 869307000037 ATP-binding site [chemical binding]; other site 869307000038 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 869307000039 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 869307000040 RNA binding surface [nucleotide binding]; other site 869307000041 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 869307000042 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 869307000043 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 869307000044 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 869307000045 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 869307000046 Ligand Binding Site [chemical binding]; other site 869307000047 TilS substrate C-terminal domain; Region: TilS_C; smart00977 869307000048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307000049 active site 869307000050 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 869307000051 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 869307000052 Walker A motif; other site 869307000053 ATP binding site [chemical binding]; other site 869307000054 Walker B motif; other site 869307000055 arginine finger; other site 869307000056 Peptidase family M41; Region: Peptidase_M41; pfam01434 869307000057 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 869307000059 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 869307000060 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 869307000061 GDP-binding site [chemical binding]; other site 869307000062 ACT binding site; other site 869307000063 IMP binding site; other site 869307000064 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 869307000065 active site 869307000066 catalytic residues [active] 869307000067 DNA binding site [nucleotide binding] 869307000068 Int/Topo IB signature motif; other site 869307000069 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 869307000070 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 869307000071 active site 869307000072 catalytic site [active] 869307000073 substrate binding site [chemical binding]; other site 869307000074 Domain of unknown function (DUF955); Region: DUF955; pfam06114 869307000075 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307000076 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 869307000077 non-specific DNA binding site [nucleotide binding]; other site 869307000078 salt bridge; other site 869307000079 sequence-specific DNA binding site [nucleotide binding]; other site 869307000080 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 869307000081 non-specific DNA binding site [nucleotide binding]; other site 869307000082 salt bridge; other site 869307000083 sequence-specific DNA binding site [nucleotide binding]; other site 869307000084 Prophage antirepressor [Transcription]; Region: COG3617 869307000085 BRO family, N-terminal domain; Region: Bro-N; smart01040 869307000086 ORF6C domain; Region: ORF6C; pfam10552 869307000087 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 869307000088 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 869307000089 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 869307000090 Walker A motif; other site 869307000091 ATP binding site [chemical binding]; other site 869307000092 Walker B motif; other site 869307000093 arginine finger; other site 869307000094 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 869307000095 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 869307000096 Int/Topo IB signature motif; other site 869307000097 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 869307000098 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 869307000099 ATP binding site [chemical binding]; other site 869307000100 putative Mg++ binding site [ion binding]; other site 869307000101 Phage-related protein [Function unknown]; Region: COG4695; cl01923 869307000102 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 869307000103 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 869307000104 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 869307000105 Phage capsid family; Region: Phage_capsid; pfam05065 869307000106 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 869307000107 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 869307000108 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 869307000109 dimer interface [polypeptide binding]; other site 869307000110 Phage-related minor tail protein [Function unknown]; Region: COG5280 869307000111 Phage-related protein [Function unknown]; Region: COG5412 869307000112 membrane protein P6; Region: PHA01399 869307000113 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 869307000114 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 869307000115 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 869307000116 toxin secretion/phage lysis holin; Region: holin_tox_secr; TIGR01593 869307000117 Phage holin protein (Holin_LLH); Region: Holin_LLH; pfam09682 869307000118 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307000119 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 869307000120 amidase catalytic site [active] 869307000121 Zn binding residues [ion binding]; other site 869307000122 substrate binding site [chemical binding]; other site 869307000123 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000124 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 869307000125 nucleoside/Zn binding site; other site 869307000126 dimer interface [polypeptide binding]; other site 869307000127 catalytic motif [active] 869307000128 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 869307000129 trimer interface [polypeptide binding]; other site 869307000130 active site 869307000131 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 869307000132 catalytic core [active] 869307000133 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 869307000134 DNA repair protein RadA; Provisional; Region: PRK11823 869307000135 Walker A motif; other site 869307000136 ATP binding site [chemical binding]; other site 869307000137 Walker B motif; other site 869307000138 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 869307000139 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 869307000140 active site clefts [active] 869307000141 zinc binding site [ion binding]; other site 869307000142 dimer interface [polypeptide binding]; other site 869307000143 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 869307000144 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 869307000145 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 869307000146 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307000147 active site 869307000149 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 869307000150 DNA polymerase I; Provisional; Region: PRK05755 869307000151 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 869307000152 active site 869307000153 metal binding site 1 [ion binding]; metal-binding site 869307000154 putative 5' ssDNA interaction site; other site 869307000155 metal binding site 3; metal-binding site 869307000156 metal binding site 2 [ion binding]; metal-binding site 869307000157 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 869307000158 putative DNA binding site [nucleotide binding]; other site 869307000159 putative metal binding site [ion binding]; other site 869307000160 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 869307000161 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 869307000162 active site 869307000163 DNA binding site [nucleotide binding] 869307000164 catalytic site [active] 869307000165 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 869307000166 Predicted membrane protein [Function unknown]; Region: COG2855 869307000167 aromatic amino acid aminotransferase; Validated; Region: PRK07309 869307000168 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 869307000169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307000170 homodimer interface [polypeptide binding]; other site 869307000171 catalytic residue [active] 869307000172 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 869307000173 Recombination protein O N terminal; Region: RecO_N; pfam11967 869307000174 Recombination protein O C terminal; Region: RecO_C; pfam02565 869307000175 putative phosphate acyltransferase; Provisional; Region: PRK05331 869307000178 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 869307000179 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 869307000180 putative active site [active] 869307000181 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307000182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307000183 Walker A/P-loop; other site 869307000184 ATP binding site [chemical binding]; other site 869307000185 Q-loop/lid; other site 869307000186 ABC transporter signature motif; other site 869307000187 Walker B; other site 869307000188 D-loop; other site 869307000189 H-loop/switch region; other site 869307000190 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869307000191 HlyD family secretion protein; Region: HlyD_3; pfam13437 869307000192 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 869307000193 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 869307000194 ATP binding site [chemical binding]; other site 869307000195 active site 869307000196 substrate binding site [chemical binding]; other site 869307000197 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 869307000198 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 869307000199 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 869307000200 dimerization interface [polypeptide binding]; other site 869307000201 ATP binding site [chemical binding]; other site 869307000202 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 869307000203 dimerization interface [polypeptide binding]; other site 869307000204 ATP binding site [chemical binding]; other site 869307000205 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 869307000206 putative active site [active] 869307000207 catalytic triad [active] 869307000208 amidophosphoribosyltransferase; Provisional; Region: PRK07272 869307000209 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 869307000210 active site 869307000211 tetramer interface [polypeptide binding]; other site 869307000212 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307000213 active site 869307000214 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 869307000215 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 869307000216 dimerization interface [polypeptide binding]; other site 869307000217 putative ATP binding site [chemical binding]; other site 869307000218 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 869307000219 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 869307000220 active site 869307000221 substrate binding site [chemical binding]; other site 869307000222 cosubstrate binding site; other site 869307000223 catalytic site [active] 869307000224 VanZ like family; Region: VanZ; pfam04892 869307000225 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 869307000226 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 869307000227 purine monophosphate binding site [chemical binding]; other site 869307000228 dimer interface [polypeptide binding]; other site 869307000229 putative catalytic residues [active] 869307000230 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 869307000231 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 869307000232 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 869307000233 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 869307000234 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 869307000235 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 869307000236 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 869307000237 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 869307000238 ATP-grasp domain; Region: ATP-grasp; pfam02222 869307000239 adenylosuccinate lyase; Provisional; Region: PRK07492 869307000240 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 869307000241 tetramer interface [polypeptide binding]; other site 869307000242 active site 869307000243 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869307000244 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 869307000245 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 869307000246 active site 869307000247 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 869307000248 active site 869307000249 G5 domain; Region: G5; pfam07501 869307000250 G5 domain; Region: G5; pfam07501 869307000251 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 869307000252 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869307000253 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307000254 DNA-binding site [nucleotide binding]; DNA binding site 869307000255 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 869307000256 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 869307000257 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 869307000258 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 869307000259 active site 869307000260 phosphorylation site [posttranslational modification] 869307000261 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 869307000262 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869307000263 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 869307000264 active pocket/dimerization site; other site 869307000265 active site 869307000266 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 869307000267 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 869307000268 dimer interface [polypeptide binding]; other site 869307000269 active site 869307000270 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 869307000271 putative active site [active] 869307000272 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 869307000273 active site 869307000274 catalytic residues [active] 869307000275 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 869307000276 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 869307000277 putative metal binding site [ion binding]; other site 869307000278 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 869307000279 active site 869307000280 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 869307000281 putative homodimer interface [polypeptide binding]; other site 869307000282 putative homotetramer interface [polypeptide binding]; other site 869307000283 putative allosteric switch controlling residues; other site 869307000284 putative metal binding site [ion binding]; other site 869307000285 putative homodimer-homodimer interface [polypeptide binding]; other site 869307000286 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 869307000287 active site residue [active] 869307000288 Similar to C-terminus of a protein from other streptococci 869307000289 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 869307000290 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 869307000291 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 869307000292 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 869307000293 TrkA-N domain; Region: TrkA_N; pfam02254 869307000295 Fibronectin-binding repeat; Region: SSURE; pfam11966 869307000296 Fibronectin-binding repeat; Region: SSURE; pfam11966 869307000297 Fibronectin-binding repeat; Region: SSURE; pfam11966 869307000298 Fibronectin-binding repeat; Region: SSURE; pfam11966 869307000299 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307000300 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 869307000301 active site 869307000302 phosphorylation site [posttranslational modification] 869307000303 intermolecular recognition site; other site 869307000304 dimerization interface [polypeptide binding]; other site 869307000305 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 869307000306 DNA binding site [nucleotide binding] 869307000307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869307000308 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 869307000309 dimerization interface [polypeptide binding]; other site 869307000310 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 869307000311 dimer interface [polypeptide binding]; other site 869307000312 phosphorylation site [posttranslational modification] 869307000313 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 869307000314 ATP binding site [chemical binding]; other site 869307000315 Mg2+ binding site [ion binding]; other site 869307000316 G-X-G motif; other site 869307000317 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 869307000318 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 869307000319 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 869307000320 RNA binding surface [nucleotide binding]; other site 869307000323 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 869307000324 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 869307000325 dimer interface [polypeptide binding]; other site 869307000326 conserved gate region; other site 869307000327 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 869307000328 ABC-ATPase subunit interface; other site 869307000329 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869307000330 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 869307000331 dimer interface [polypeptide binding]; other site 869307000332 conserved gate region; other site 869307000333 putative PBP binding loops; other site 869307000334 ABC-ATPase subunit interface; other site 869307000335 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869307000336 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 869307000337 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 869307000338 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 869307000339 active site residue [active] 869307000340 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 869307000341 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 869307000342 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 869307000343 Predicted membrane protein [Function unknown]; Region: COG4709 869307000344 Predicted transcriptional regulators [Transcription]; Region: COG1695 869307000345 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 869307000346 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 869307000347 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 869307000348 putative substrate translocation pore; other site 869307000349 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 869307000350 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 869307000351 Ligand binding site; other site 869307000352 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 869307000353 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869307000354 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 869307000355 NAD(P) binding site [chemical binding]; other site 869307000356 homodimer interface [polypeptide binding]; other site 869307000357 substrate binding site [chemical binding]; other site 869307000358 active site 869307000359 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 869307000360 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 869307000361 active site 869307000362 motif I; other site 869307000363 motif II; other site 869307000364 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 869307000365 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 869307000366 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 869307000367 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 869307000368 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 869307000369 putative L-serine binding site [chemical binding]; other site 869307000370 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 869307000371 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 869307000372 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307000373 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 869307000374 non-specific DNA binding site [nucleotide binding]; other site 869307000375 salt bridge; other site 869307000376 sequence-specific DNA binding site [nucleotide binding]; other site 869307000377 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 869307000378 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 869307000379 putative active site [active] 869307000380 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307000381 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307000382 Walker A/P-loop; other site 869307000383 ATP binding site [chemical binding]; other site 869307000384 Q-loop/lid; other site 869307000385 ABC transporter signature motif; other site 869307000386 Walker B; other site 869307000387 D-loop; other site 869307000388 H-loop/switch region; other site 869307000389 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869307000390 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 869307000391 HlyD family secretion protein; Region: HlyD_3; pfam13437 869307000392 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 869307000393 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869307000394 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000395 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000396 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000397 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869307000398 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000399 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000400 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000401 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 869307000402 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000403 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307000404 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 869307000405 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 869307000406 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 869307000407 nudix motif; other site 869307000408 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 869307000409 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 869307000410 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 869307000411 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 869307000412 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 869307000413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 869307000414 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 869307000415 hypothetical protein; Provisional; Region: PRK13667 869307000417 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 869307000418 Glycoprotease family; Region: Peptidase_M22; pfam00814 869307000419 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 869307000420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307000421 Coenzyme A binding pocket [chemical binding]; other site 869307000422 UGMP family protein; Validated; Region: PRK09604 869307000423 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 869307000424 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 869307000426 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 869307000427 Helix-turn-helix domain; Region: HTH_38; pfam13936 869307000428 Transposase; Region: DDE_Tnp_ISL3; pfam01610 869307000431 Apparently inactivated by an internal deletion relative to some orthologues 869307000432 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307000433 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 869307000434 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307000435 Walker A/P-loop; other site 869307000436 ATP binding site [chemical binding]; other site 869307000437 Q-loop/lid; other site 869307000438 ABC transporter signature motif; other site 869307000439 Walker B; other site 869307000440 D-loop; other site 869307000441 H-loop/switch region; other site 869307000444 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 869307000448 H+ Antiporter protein; Region: 2A0121; TIGR00900 869307000449 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 869307000450 Predicted membrane protein [Function unknown]; Region: COG4392 869307000451 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307000452 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 869307000453 substrate binding pocket [chemical binding]; other site 869307000454 membrane-bound complex binding site; other site 869307000455 hinge residues; other site 869307000456 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 869307000457 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 869307000458 hypothetical protein; Provisional; Region: PRK06446 869307000459 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 869307000460 metal binding site [ion binding]; metal-binding site 869307000461 dimer interface [polypeptide binding]; other site 869307000462 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 869307000463 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 869307000464 Walker A/P-loop; other site 869307000465 ATP binding site [chemical binding]; other site 869307000466 Q-loop/lid; other site 869307000467 ABC transporter signature motif; other site 869307000468 Walker B; other site 869307000469 D-loop; other site 869307000470 H-loop/switch region; other site 869307000471 NIL domain; Region: NIL; pfam09383 869307000472 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 869307000473 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 869307000474 Protein of unknown function, DUF624; Region: DUF624; cl02369 869307000475 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869307000476 HAMP domain; Region: HAMP; pfam00672 869307000477 Histidine kinase; Region: His_kinase; pfam06580 869307000478 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 869307000479 ATP binding site [chemical binding]; other site 869307000480 Mg2+ binding site [ion binding]; other site 869307000481 G-X-G motif; other site 869307000482 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 869307000483 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 869307000484 active site 869307000485 phosphorylation site [posttranslational modification] 869307000486 intermolecular recognition site; other site 869307000487 dimerization interface [polypeptide binding]; other site 869307000488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869307000489 flavoprotein NrdI; Provisional; Region: PRK02551 869307000490 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 869307000491 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 869307000492 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869307000493 LytTr DNA-binding domain; Region: LytTR; smart00850 869307000494 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 869307000495 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 869307000496 ATP binding site [chemical binding]; other site 869307000497 Mg2+ binding site [ion binding]; other site 869307000498 G-X-G motif; other site 869307000499 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 869307000500 ATP binding site [chemical binding]; other site 869307000501 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 869307000502 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 869307000503 homopentamer interface [polypeptide binding]; other site 869307000504 active site 869307000505 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 869307000506 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 869307000507 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 869307000508 dimerization interface [polypeptide binding]; other site 869307000509 active site 869307000510 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 869307000511 Lumazine binding domain; Region: Lum_binding; pfam00677 869307000512 Lumazine binding domain; Region: Lum_binding; pfam00677 869307000513 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 869307000514 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 869307000515 catalytic motif [active] 869307000516 Zn binding site [ion binding]; other site 869307000517 RibD C-terminal domain; Region: RibD_C; cl17279 869307000518 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 869307000519 RuvA N terminal domain; Region: RuvA_N; pfam01330 869307000520 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 869307000521 CAAX protease self-immunity; Region: Abi; pfam02517 869307000522 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 869307000523 putative dimer interface [polypeptide binding]; other site 869307000524 catalytic triad [active] 869307000525 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 869307000526 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 869307000527 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 869307000528 Cl binding site [ion binding]; other site 869307000529 oligomer interface [polypeptide binding]; other site 869307000530 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 869307000531 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 869307000532 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 869307000533 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 869307000534 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 869307000535 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 869307000536 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 869307000537 active site 869307000538 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 869307000539 ArsC family; Region: ArsC; pfam03960 869307000540 putative catalytic residues [active] 869307000541 thiol/disulfide switch; other site 869307000542 hypothetical protein; Provisional; Region: PRK05473 869307000543 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 869307000544 hypothetical protein; Provisional; Region: PRK13678 869307000545 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 869307000546 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869307000547 Bacterial lipoprotein; Region: DUF3642; pfam12182 869307000548 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 869307000549 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 869307000550 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 869307000551 putative active site [active] 869307000552 catalytic site [active] 869307000553 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 869307000554 putative active site [active] 869307000555 catalytic site [active] 869307000556 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 869307000557 ATP cone domain; Region: ATP-cone; pfam03477 869307000558 Class III ribonucleotide reductase; Region: RNR_III; cd01675 869307000559 effector binding site; other site 869307000560 active site 869307000561 Zn binding site [ion binding]; other site 869307000562 glycine loop; other site 869307000563 Predicted acetyltransferase [General function prediction only]; Region: COG3981 869307000564 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307000565 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 869307000566 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 869307000567 FeS/SAM binding site; other site 869307000568 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 869307000569 active site 869307000570 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 869307000571 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 869307000572 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 869307000573 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 869307000574 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 869307000575 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 869307000576 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 869307000577 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 869307000578 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 869307000579 putative translocon binding site; other site 869307000580 protein-rRNA interface [nucleotide binding]; other site 869307000581 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 869307000582 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 869307000583 G-X-X-G motif; other site 869307000584 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 869307000585 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 869307000586 23S rRNA interface [nucleotide binding]; other site 869307000587 5S rRNA interface [nucleotide binding]; other site 869307000588 putative antibiotic binding site [chemical binding]; other site 869307000589 L25 interface [polypeptide binding]; other site 869307000590 L27 interface [polypeptide binding]; other site 869307000591 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 869307000592 23S rRNA interface [nucleotide binding]; other site 869307000593 putative translocon interaction site; other site 869307000594 signal recognition particle (SRP54) interaction site; other site 869307000595 L23 interface [polypeptide binding]; other site 869307000596 trigger factor interaction site; other site 869307000597 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 869307000598 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 869307000599 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 869307000600 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 869307000601 RNA binding site [nucleotide binding]; other site 869307000602 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 869307000603 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 869307000604 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 869307000605 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 869307000606 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 869307000607 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 869307000608 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 869307000609 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 869307000610 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 869307000611 5S rRNA interface [nucleotide binding]; other site 869307000612 L27 interface [polypeptide binding]; other site 869307000613 23S rRNA interface [nucleotide binding]; other site 869307000614 L5 interface [polypeptide binding]; other site 869307000615 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 869307000616 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 869307000617 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 869307000618 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 869307000619 23S rRNA binding site [nucleotide binding]; other site 869307000620 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 869307000621 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 869307000622 SecY translocase; Region: SecY; pfam00344 869307000623 adenylate kinase; Reviewed; Region: adk; PRK00279 869307000624 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 869307000625 AMP-binding site [chemical binding]; other site 869307000626 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 869307000627 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 869307000628 rRNA binding site [nucleotide binding]; other site 869307000629 predicted 30S ribosome binding site; other site 869307000630 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 869307000631 30S ribosomal protein S13; Region: bact_S13; TIGR03631 869307000632 30S ribosomal protein S11; Validated; Region: PRK05309 869307000633 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 869307000634 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 869307000635 alphaNTD homodimer interface [polypeptide binding]; other site 869307000636 alphaNTD - beta interaction site [polypeptide binding]; other site 869307000637 alphaNTD - beta' interaction site [polypeptide binding]; other site 869307000638 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 869307000639 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 869307000640 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 869307000641 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 869307000642 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 869307000643 catalytic core [active] 869307000644 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869307000645 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 869307000646 dimer interface [polypeptide binding]; other site 869307000647 conserved gate region; other site 869307000648 putative PBP binding loops; other site 869307000649 ABC-ATPase subunit interface; other site 869307000650 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 869307000651 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869307000652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307000653 Walker A/P-loop; other site 869307000654 ATP binding site [chemical binding]; other site 869307000655 Q-loop/lid; other site 869307000656 ABC transporter signature motif; other site 869307000657 Walker B; other site 869307000658 D-loop; other site 869307000659 H-loop/switch region; other site 869307000660 TOBE domain; Region: TOBE_2; pfam08402 869307000661 CDS apparently disrupted by a RUP element insertion 869307000662 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869307000663 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869307000664 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 869307000665 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869307000666 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 869307000667 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869307000668 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 869307000669 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 869307000670 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 869307000671 active site 869307000672 methionine cluster; other site 869307000673 phosphorylation site [posttranslational modification] 869307000674 metal binding site [ion binding]; metal-binding site 869307000675 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 869307000676 active site 869307000677 P-loop; other site 869307000678 phosphorylation site [posttranslational modification] 869307000679 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869307000680 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869307000681 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 869307000682 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 869307000683 dimer interface [polypeptide binding]; other site 869307000684 active site 869307000685 glycine loop; other site 869307000686 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 869307000687 active site 869307000688 intersubunit interactions; other site 869307000689 catalytic residue [active] 869307000690 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 869307000691 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 869307000692 dimer interface [polypeptide binding]; other site 869307000693 active site 869307000694 metal binding site [ion binding]; metal-binding site 869307000695 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 869307000696 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 869307000697 HIGH motif; other site 869307000698 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 869307000699 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869307000700 active site 869307000701 KMSKS motif; other site 869307000702 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 869307000703 tRNA binding surface [nucleotide binding]; other site 869307000704 GNAT acetyltransferase gene disrupted by a RUP insertion and a frameshift mutation 869307000705 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 869307000706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307000707 Coenzyme A binding pocket [chemical binding]; other site 869307000708 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 869307000709 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 869307000710 Walker A motif; other site 869307000711 ATP binding site [chemical binding]; other site 869307000712 Walker B motif; other site 869307000713 arginine finger; other site 869307000714 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 869307000716 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 869307000717 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 869307000718 catalytic residue [active] 869307000719 putative FPP diphosphate binding site; other site 869307000720 putative FPP binding hydrophobic cleft; other site 869307000721 dimer interface [polypeptide binding]; other site 869307000722 putative IPP diphosphate binding site; other site 869307000723 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 869307000724 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 869307000725 RIP metalloprotease RseP; Region: TIGR00054 869307000726 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 869307000727 active site 869307000728 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 869307000729 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 869307000730 putative substrate binding region [chemical binding]; other site 869307000731 prolyl-tRNA synthetase; Provisional; Region: PRK09194 869307000732 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 869307000733 dimer interface [polypeptide binding]; other site 869307000734 motif 1; other site 869307000735 active site 869307000736 motif 2; other site 869307000737 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 869307000738 putative deacylase active site [active] 869307000739 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 869307000740 active site 869307000741 motif 3; other site 869307000742 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 869307000743 anticodon binding site; other site 869307000744 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869307000745 beta-galactosidase; Region: BGL; TIGR03356 869307000746 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 869307000747 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 869307000748 glutaminase active site [active] 869307000749 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 869307000750 dimer interface [polypeptide binding]; other site 869307000751 active site 869307000752 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 869307000753 dimer interface [polypeptide binding]; other site 869307000754 active site 869307000755 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 869307000756 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 869307000757 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 869307000758 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 869307000759 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 869307000760 carbohydrate binding site [chemical binding]; other site 869307000761 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 869307000762 carbohydrate binding site [chemical binding]; other site 869307000763 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 869307000764 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 869307000765 Ca binding site [ion binding]; other site 869307000766 active site 869307000767 catalytic site [active] 869307000768 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 869307000769 S17 interaction site [polypeptide binding]; other site 869307000770 S8 interaction site; other site 869307000771 16S rRNA interaction site [nucleotide binding]; other site 869307000772 streptomycin interaction site [chemical binding]; other site 869307000773 23S rRNA interaction site [nucleotide binding]; other site 869307000774 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 869307000775 30S ribosomal protein S7; Validated; Region: PRK05302 869307000776 elongation factor G; Reviewed; Region: PRK00007 869307000777 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 869307000778 G1 box; other site 869307000779 putative GEF interaction site [polypeptide binding]; other site 869307000780 GTP/Mg2+ binding site [chemical binding]; other site 869307000781 Switch I region; other site 869307000782 G2 box; other site 869307000783 G3 box; other site 869307000784 Switch II region; other site 869307000785 G4 box; other site 869307000786 G5 box; other site 869307000787 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 869307000788 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 869307000789 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 869307000790 DNA polymerase III PolC; Validated; Region: polC; PRK00448 869307000791 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 869307000792 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 869307000793 generic binding surface II; other site 869307000794 generic binding surface I; other site 869307000795 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 869307000796 active site 869307000797 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869307000798 active site 869307000799 catalytic site [active] 869307000800 substrate binding site [chemical binding]; other site 869307000801 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 869307000802 putative PHP Thumb interface [polypeptide binding]; other site 869307000803 active site 869307000804 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 869307000805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 869307000806 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 869307000807 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 869307000808 Predicted membrane protein [Function unknown]; Region: COG2261 869307000809 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869307000810 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 869307000811 RNA binding surface [nucleotide binding]; other site 869307000812 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 869307000813 active site 869307000814 uracil binding [chemical binding]; other site 869307000815 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 869307000816 trimer interface [polypeptide binding]; other site 869307000817 active site 869307000818 G bulge; other site 869307000819 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869307000820 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 869307000821 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 869307000822 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 869307000823 active pocket/dimerization site; other site 869307000824 active site 869307000825 phosphorylation site [posttranslational modification] 869307000826 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 869307000827 active site 869307000828 phosphorylation site [posttranslational modification] 869307000829 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 869307000830 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 869307000831 NAD binding site [chemical binding]; other site 869307000832 substrate binding site [chemical binding]; other site 869307000833 catalytic Zn binding site [ion binding]; other site 869307000834 tetramer interface [polypeptide binding]; other site 869307000835 structural Zn binding site [ion binding]; other site 869307000836 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869307000837 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 869307000838 active site 869307000839 motif I; other site 869307000840 motif II; other site 869307000841 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 869307000842 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 869307000843 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 869307000844 dihydropteroate synthase; Region: DHPS; TIGR01496 869307000845 substrate binding pocket [chemical binding]; other site 869307000846 dimer interface [polypeptide binding]; other site 869307000847 inhibitor binding site; inhibition site 869307000848 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 869307000849 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869307000850 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869307000851 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 869307000852 homodecamer interface [polypeptide binding]; other site 869307000853 GTP cyclohydrolase I; Provisional; Region: PLN03044 869307000854 active site 869307000855 putative catalytic site residues [active] 869307000856 zinc binding site [ion binding]; other site 869307000857 GTP-CH-I/GFRP interaction surface; other site 869307000858 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 869307000859 homooctamer interface [polypeptide binding]; other site 869307000860 active site 869307000861 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 869307000862 catalytic center binding site [active] 869307000863 ATP binding site [chemical binding]; other site 869307000864 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 869307000865 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 869307000866 23S rRNA interface [nucleotide binding]; other site 869307000867 L3 interface [polypeptide binding]; other site 869307000868 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 869307000869 Uncharacterized conserved protein [Function unknown]; Region: COG1359 869307000870 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 869307000871 beta-galactosidase; Region: BGL; TIGR03356 869307000872 Uncharacterized conserved protein [Function unknown]; Region: COG4095 869307000873 cellobiose phosphotransferase system IIB component; Reviewed; Region: celB; PRK09590 869307000874 active site 869307000875 P-loop; other site 869307000876 phosphorylation site [posttranslational modification] 869307000877 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869307000878 HTH domain; Region: HTH_11; pfam08279 869307000879 Mga helix-turn-helix domain; Region: Mga; pfam05043 869307000880 PRD domain; Region: PRD; pfam00874 869307000881 PRD domain; Region: PRD; pfam00874 869307000882 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 869307000883 active site 869307000884 P-loop; other site 869307000885 phosphorylation site [posttranslational modification] 869307000886 Phosphotransferase system mannitol/fructose-specific IIA domain (Ntr-type) [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: PtsN; COG1762 869307000887 active site 869307000888 phosphorylation site [posttranslational modification] 869307000889 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 869307000890 methionine cluster; other site 869307000891 active site 869307000892 phosphorylation site [posttranslational modification] 869307000893 metal binding site [ion binding]; metal-binding site 869307000894 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869307000895 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869307000898 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 869307000899 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 869307000900 putative active site [active] 869307000901 putative catalytic site [active] 869307000902 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 869307000903 catalytic residues [active] 869307000904 dimer interface [polypeptide binding]; other site 869307000907 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 869307000908 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 869307000909 active site 869307000910 intersubunit interface [polypeptide binding]; other site 869307000911 catalytic residue [active] 869307000912 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 869307000913 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 869307000914 substrate binding site [chemical binding]; other site 869307000915 ATP binding site [chemical binding]; other site 869307000916 hypothetical protein; Provisional; Region: PRK09273 869307000917 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 869307000918 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 869307000919 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 869307000920 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 869307000921 NADP binding site [chemical binding]; other site 869307000922 homodimer interface [polypeptide binding]; other site 869307000923 active site 869307000924 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 869307000925 active pocket/dimerization site; other site 869307000926 active site 869307000927 phosphorylation site [posttranslational modification] 869307000928 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 869307000929 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 869307000930 active site 869307000931 phosphorylation site [posttranslational modification] 869307000932 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 869307000933 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 869307000934 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 869307000935 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 869307000936 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869307000937 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869307000938 DNA binding site [nucleotide binding] 869307000939 domain linker motif; other site 869307000940 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 869307000941 putative dimerization interface [polypeptide binding]; other site 869307000942 putative ligand binding site [chemical binding]; other site 869307000943 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 869307000944 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 869307000945 non-specific DNA binding site [nucleotide binding]; other site 869307000946 salt bridge; other site 869307000947 sequence-specific DNA binding site [nucleotide binding]; other site 869307000948 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 869307000949 MraW methylase family; Region: Methyltransf_5; pfam01795 869307000950 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 869307000951 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 869307000952 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 869307000953 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 869307000954 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 869307000955 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 869307000956 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 869307000957 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 869307000958 Mg++ binding site [ion binding]; other site 869307000959 putative catalytic motif [active] 869307000960 putative substrate binding site [chemical binding]; other site 869307000961 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 869307000962 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 869307000963 Walker A motif; other site 869307000964 ATP binding site [chemical binding]; other site 869307000965 Walker B motif; other site 869307000966 arginine finger; other site 869307000967 UvrB/uvrC motif; Region: UVR; pfam02151 869307000968 MoxR-like ATPases [General function prediction only]; Region: COG0714 869307000969 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 869307000970 Walker A motif; other site 869307000971 ATP binding site [chemical binding]; other site 869307000972 Walker B motif; other site 869307000973 arginine finger; other site 869307000974 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869307000975 LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]; Region: LuxS; COG1854 869307000976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 869307000977 hypothetical protein; Provisional; Region: PRK13663 869307000978 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 869307000979 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 869307000980 Ca binding site [ion binding]; other site 869307000981 active site 869307000982 catalytic site [active] 869307000987 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 869307000988 polysaccharide export protein, MPA1 family, Gram-positive type; Region: polys_exp_MPA1; TIGR01006 869307000990 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 869307000991 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 869307000992 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 869307000993 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 869307000994 Hyaluronan synthases catalyze polymerization of hyaluronan; Region: GT2_HAS; cd06434 869307000995 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 869307000996 DXD motif; other site 869307000997 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 869307000998 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 869307000999 active site 869307001000 tetramer interface; other site 869307001001 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 869307001002 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 869307001003 active site 869307001004 substrate binding site [chemical binding]; other site 869307001005 metal binding site [ion binding]; metal-binding site 869307001006 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 869307001007 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869307001008 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 869307001009 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869307001010 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 869307001011 Transglycosylase; Region: Transgly; pfam00912 869307001012 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 869307001013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869307001014 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 869307001015 hypothetical protein; Provisional; Region: PRK13660 869307001016 cell division protein GpsB; Provisional; Region: PRK14127 869307001017 DivIVA domain; Region: DivI1A_domain; TIGR03544 869307001018 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 869307001019 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 869307001020 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 869307001021 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 869307001022 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 869307001023 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 869307001024 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307001025 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 869307001026 active site 869307001027 phosphorylation site [posttranslational modification] 869307001028 intermolecular recognition site; other site 869307001029 dimerization interface [polypeptide binding]; other site 869307001030 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 869307001031 DNA binding site [nucleotide binding] 869307001032 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307001033 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307001034 Lantibiotic modifying enzyme [Defense mechanisms]; Region: LcnDR2; COG4403 869307001035 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 869307001036 active site 869307001037 zinc binding site [ion binding]; other site 869307001038 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 869307001039 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 869307001040 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869307001041 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869307001042 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 869307001043 diphosphomevalonate decarboxylase; Region: PLN02407 869307001044 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 869307001045 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869307001046 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 869307001047 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 869307001048 homotetramer interface [polypeptide binding]; other site 869307001049 FMN binding site [chemical binding]; other site 869307001050 homodimer contacts [polypeptide binding]; other site 869307001051 putative active site [active] 869307001052 putative substrate binding site [chemical binding]; other site 869307001053 Predicted membrane protein [Function unknown]; Region: COG4758 869307001054 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 869307001055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869307001056 Histidine kinase; Region: HisKA_3; pfam07730 869307001057 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 869307001058 ATP binding site [chemical binding]; other site 869307001059 Mg2+ binding site [ion binding]; other site 869307001060 G-X-G motif; other site 869307001061 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 869307001062 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 869307001063 active site 869307001064 phosphorylation site [posttranslational modification] 869307001065 intermolecular recognition site; other site 869307001066 dimerization interface [polypeptide binding]; other site 869307001067 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 869307001068 DNA binding residues [nucleotide binding] 869307001069 dimerization interface [polypeptide binding]; other site 869307001070 Appears to have been disrupted through the insertion of a BOX element; Gene model based on TIGR4 annotation and Fasta sequence similarity 869307001072 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 869307001073 DNA binding site [nucleotide binding] 869307001074 Int/Topo IB signature motif; other site 869307001075 active site 869307001076 trigger factor; Provisional; Region: tig; PRK01490 869307001077 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 869307001078 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 869307001079 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 869307001080 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 869307001081 DNA binding site [nucleotide binding] 869307001082 AAA domain; Region: AAA_30; pfam13604 869307001083 Family description; Region: UvrD_C_2; pfam13538 869307001084 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 869307001085 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 869307001086 Catalytic site [active] 869307001087 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 869307001088 ribonuclease HIII; Provisional; Region: PRK00996 869307001089 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 869307001090 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 869307001091 RNA/DNA hybrid binding site [nucleotide binding]; other site 869307001092 active site 869307001093 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 869307001094 Colicin V production protein; Region: Colicin_V; pfam02674 869307001095 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 869307001096 MutS domain III; Region: MutS_III; pfam05192 869307001097 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 869307001098 Walker A/P-loop; other site 869307001099 ATP binding site [chemical binding]; other site 869307001100 Q-loop/lid; other site 869307001101 ABC transporter signature motif; other site 869307001102 Walker B; other site 869307001103 D-loop; other site 869307001104 H-loop/switch region; other site 869307001105 Smr domain; Region: Smr; pfam01713 869307001106 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 869307001107 amino acid carrier protein; Region: agcS; TIGR00835 869307001108 Uncharacterized conserved protein [Function unknown]; Region: COG2128 869307001109 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 869307001110 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 869307001111 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 869307001112 gating phenylalanine in ion channel; other site 869307001113 seryl-tRNA synthetase; Provisional; Region: PRK05431 869307001114 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 869307001115 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 869307001116 dimer interface [polypeptide binding]; other site 869307001117 active site 869307001118 motif 1; other site 869307001119 motif 2; other site 869307001120 motif 3; other site 869307001121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4687 869307001122 aspartate kinase; Reviewed; Region: PRK09034 869307001123 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 869307001124 putative catalytic residues [active] 869307001125 putative nucleotide binding site [chemical binding]; other site 869307001126 putative aspartate binding site [chemical binding]; other site 869307001127 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 869307001128 allosteric regulatory residue; other site 869307001129 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 869307001130 enoyl-CoA hydratase; Provisional; Region: PRK07260 869307001131 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 869307001132 substrate binding site [chemical binding]; other site 869307001133 oxyanion hole (OAH) forming residues; other site 869307001134 trimer interface [polypeptide binding]; other site 869307001135 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 869307001136 MarR family; Region: MarR_2; pfam12802 869307001137 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 869307001138 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 869307001139 dimer interface [polypeptide binding]; other site 869307001140 active site 869307001141 CoA binding pocket [chemical binding]; other site 869307001142 acyl carrier protein; Provisional; Region: acpP; PRK00982 869307001143 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 869307001144 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 869307001145 FMN binding site [chemical binding]; other site 869307001146 substrate binding site [chemical binding]; other site 869307001147 putative catalytic residue [active] 869307001148 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 869307001149 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 869307001150 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 869307001151 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 869307001152 NAD(P) binding site [chemical binding]; other site 869307001153 homotetramer interface [polypeptide binding]; other site 869307001154 homodimer interface [polypeptide binding]; other site 869307001155 active site 869307001156 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 869307001157 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 869307001158 dimer interface [polypeptide binding]; other site 869307001159 active site 869307001160 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 869307001161 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 869307001162 carboxyltransferase (CT) interaction site; other site 869307001163 biotinylation site [posttranslational modification]; other site 869307001164 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 869307001165 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 869307001166 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869307001167 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 869307001168 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 869307001169 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 869307001170 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 869307001171 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 869307001172 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 869307001173 CAAX protease self-immunity; Region: Abi; pfam02517 869307001175 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 869307001176 putative RNA binding site [nucleotide binding]; other site 869307001177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869307001178 elongation factor P; Validated; Region: PRK00529 869307001179 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 869307001180 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 869307001181 RNA binding site [nucleotide binding]; other site 869307001182 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 869307001183 RNA binding site [nucleotide binding]; other site 869307001184 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 869307001185 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 869307001186 GatB domain; Region: GatB_Yqey; pfam02637 869307001187 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 869307001188 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 869307001189 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 869307001190 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 869307001191 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 869307001192 G1 box; other site 869307001193 putative GEF interaction site [polypeptide binding]; other site 869307001194 GTP/Mg2+ binding site [chemical binding]; other site 869307001195 Switch I region; other site 869307001196 G2 box; other site 869307001197 G3 box; other site 869307001198 Switch II region; other site 869307001199 G4 box; other site 869307001200 G5 box; other site 869307001201 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 869307001203 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 869307001204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869307001205 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 869307001206 DAK2 domain; Region: Dak2; pfam02734 869307001207 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 869307001208 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 869307001209 PYR/PP interface [polypeptide binding]; other site 869307001210 dimer interface [polypeptide binding]; other site 869307001211 TPP binding site [chemical binding]; other site 869307001212 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 869307001213 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 869307001214 TPP-binding site [chemical binding]; other site 869307001215 dimer interface [polypeptide binding]; other site 869307001216 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 869307001217 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 869307001218 putative valine binding site [chemical binding]; other site 869307001219 dimer interface [polypeptide binding]; other site 869307001220 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 869307001221 ketol-acid reductoisomerase; Provisional; Region: PRK05479 869307001222 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 869307001223 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 869307001225 threonine dehydratase; Validated; Region: PRK08639 869307001226 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 869307001227 tetramer interface [polypeptide binding]; other site 869307001228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307001229 catalytic residue [active] 869307001230 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 869307001231 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869307001232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307001233 Walker A/P-loop; other site 869307001234 ATP binding site [chemical binding]; other site 869307001235 Q-loop/lid; other site 869307001236 ABC transporter signature motif; other site 869307001237 Walker B; other site 869307001238 D-loop; other site 869307001239 H-loop/switch region; other site 869307001240 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 869307001241 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307001242 substrate binding pocket [chemical binding]; other site 869307001243 membrane-bound complex binding site; other site 869307001244 hinge residues; other site 869307001245 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 869307001246 dimer interface [polypeptide binding]; other site 869307001247 conserved gate region; other site 869307001248 putative PBP binding loops; other site 869307001249 ABC-ATPase subunit interface; other site 869307001250 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 869307001252 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 869307001253 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 869307001254 active site 869307001255 DNA polymerase IV; Validated; Region: PRK02406 869307001256 DNA binding site [nucleotide binding] 869307001257 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 869307001258 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 869307001260 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 869307001261 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 869307001262 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 869307001263 TrkA-N domain; Region: TrkA_N; pfam02254 869307001264 TrkA-C domain; Region: TrkA_C; pfam02080 869307001265 TrkA-N domain; Region: TrkA_N; pfam02254 869307001266 TrkA-C domain; Region: TrkA_C; pfam02080 869307001267 Uncharacterized conserved protein [Function unknown]; Region: COG1912 869307001268 hypothetical protein; Provisional; Region: PRK13661 869307001269 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869307001270 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869307001271 Walker A/P-loop; other site 869307001272 ATP binding site [chemical binding]; other site 869307001273 Q-loop/lid; other site 869307001274 ABC transporter signature motif; other site 869307001275 Walker B; other site 869307001276 D-loop; other site 869307001277 H-loop/switch region; other site 869307001278 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 869307001279 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869307001280 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869307001281 Walker A/P-loop; other site 869307001282 ATP binding site [chemical binding]; other site 869307001283 Q-loop/lid; other site 869307001284 ABC transporter signature motif; other site 869307001285 Walker B; other site 869307001286 D-loop; other site 869307001287 H-loop/switch region; other site 869307001288 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869307001289 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 869307001290 Predicted membrane protein [Function unknown]; Region: COG3601 869307001291 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 869307001292 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 869307001293 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 869307001294 active site 869307001295 ParB-like nuclease domain; Region: ParBc; cl02129 869307001296 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307001297 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869307001298 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 869307001299 CTP synthetase; Validated; Region: pyrG; PRK05380 869307001300 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 869307001301 Catalytic site [active] 869307001302 active site 869307001303 UTP binding site [chemical binding]; other site 869307001304 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 869307001305 active site 869307001306 putative oxyanion hole; other site 869307001307 catalytic triad [active] 869307001308 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 869307001309 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 869307001310 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 869307001311 PhoU domain; Region: PhoU; pfam01895 869307001312 PhoU domain; Region: PhoU; pfam01895 869307001313 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869307001314 Endo-beta-N-acetylglucosaminidase D [Carbohydrate transport and metabolism]; Region: COG4724 869307001315 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 869307001316 putative active site [active] 869307001317 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869307001318 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 869307001319 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 869307001320 G5 domain; Region: G5; pfam07501 869307001321 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 869307001322 Phosphoglycerate kinase; Region: PGK; pfam00162 869307001323 substrate binding site [chemical binding]; other site 869307001324 hinge regions; other site 869307001325 ADP binding site [chemical binding]; other site 869307001326 catalytic site [active] 869307001327 Predicted membrane protein [Function unknown]; Region: COG4129 869307001328 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 869307001329 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 869307001330 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 869307001331 DNA binding residues [nucleotide binding] 869307001332 putative dimer interface [polypeptide binding]; other site 869307001333 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 869307001334 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 869307001335 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 869307001336 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 869307001337 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869307001338 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 869307001339 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 869307001340 Int/Topo IB signature motif; other site 869307001341 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869307001343 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 869307001344 HsdM N-terminal domain; Region: HsdM_N; pfam12161 869307001345 Methyltransferase domain; Region: Methyltransf_26; pfam13659 869307001346 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 869307001347 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 869307001348 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 869307001349 ATP binding site [chemical binding]; other site 869307001350 putative Mg++ binding site [ion binding]; other site 869307001351 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 869307001352 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 869307001353 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 869307001354 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 869307001355 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 869307001356 dimer interface [polypeptide binding]; other site 869307001357 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 869307001358 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 869307001359 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 869307001360 nucleotide binding site [chemical binding]; other site 869307001361 NEF interaction site [polypeptide binding]; other site 869307001362 SBD interface [polypeptide binding]; other site 869307001363 chaperone protein DnaJ; Provisional; Region: PRK14276 869307001364 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 869307001365 HSP70 interaction site [polypeptide binding]; other site 869307001366 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 869307001367 substrate binding site [polypeptide binding]; other site 869307001368 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 869307001369 Zn binding sites [ion binding]; other site 869307001370 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 869307001371 substrate binding site [polypeptide binding]; other site 869307001372 dimer interface [polypeptide binding]; other site 869307001373 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 869307001374 HIT family signature motif; other site 869307001375 catalytic residue [active] 869307001376 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 869307001377 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869307001378 Walker A/P-loop; other site 869307001379 ATP binding site [chemical binding]; other site 869307001380 Q-loop/lid; other site 869307001381 ABC transporter signature motif; other site 869307001382 Walker B; other site 869307001383 D-loop; other site 869307001384 H-loop/switch region; other site 869307001385 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 869307001386 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 869307001387 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869307001388 LytTr DNA-binding domain; Region: LytTR; pfam04397 869307001389 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869307001390 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 869307001391 active site 869307001392 phosphorylation site [posttranslational modification] 869307001393 intermolecular recognition site; other site 869307001394 dimerization interface [polypeptide binding]; other site 869307001395 LytTr DNA-binding domain; Region: LytTR; pfam04397 869307001396 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869307001397 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 869307001398 ATP binding site [chemical binding]; other site 869307001399 Mg2+ binding site [ion binding]; other site 869307001400 G-X-G motif; other site 869307001401 COMC family; Region: ComC; pfam03047 869307001402 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 869307001403 HlyD family secretion protein; Region: HlyD_3; pfam13437 869307001405 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 869307001406 putative active site [active] 869307001408 CAAX protease self-immunity; Region: Abi; pfam02517 869307001409 CAAX protease self-immunity; Region: Abi; pfam02517 869307001410 Phosphotransferase enzyme family; Region: APH; pfam01636 869307001411 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 869307001412 substrate binding site [chemical binding]; other site 869307001413 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 869307001414 S-adenosylmethionine binding site [chemical binding]; other site 869307001415 ribosome maturation protein RimP; Reviewed; Region: PRK00092 869307001416 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 869307001417 putative oligomer interface [polypeptide binding]; other site 869307001418 putative RNA binding site [nucleotide binding]; other site 869307001419 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 869307001420 NusA N-terminal domain; Region: NusA_N; pfam08529 869307001421 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 869307001422 RNA binding site [nucleotide binding]; other site 869307001423 homodimer interface [polypeptide binding]; other site 869307001424 NusA-like KH domain; Region: KH_5; pfam13184 869307001425 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 869307001426 G-X-X-G motif; other site 869307001427 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 869307001428 putative RNA binding cleft [nucleotide binding]; other site 869307001429 hypothetical protein; Provisional; Region: PRK07283 869307001430 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 869307001431 translation initiation factor IF-2; Region: IF-2; TIGR00487 869307001432 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 869307001433 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 869307001434 G1 box; other site 869307001435 putative GEF interaction site [polypeptide binding]; other site 869307001436 GTP/Mg2+ binding site [chemical binding]; other site 869307001437 Switch I region; other site 869307001438 G2 box; other site 869307001439 G3 box; other site 869307001440 Switch II region; other site 869307001441 G4 box; other site 869307001442 G5 box; other site 869307001443 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 869307001444 Translation-initiation factor 2; Region: IF-2; pfam11987 869307001445 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 869307001446 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 869307001447 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 869307001448 Uncharacterized conserved protein [Function unknown]; Region: COG2461 869307001449 Family of unknown function (DUF438); Region: DUF438; pfam04282 869307001450 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 869307001451 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 869307001452 putative active site [active] 869307001453 heme pocket [chemical binding]; other site 869307001454 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 869307001455 hypothetical protein; Provisional; Region: PRK07758 869307001456 Flavin Reductases; Region: FlaRed; cl00801 869307001457 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869307001458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307001459 Coenzyme A binding pocket [chemical binding]; other site 869307001460 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 869307001461 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869307001462 active site 869307001463 HIGH motif; other site 869307001464 nucleotide binding site [chemical binding]; other site 869307001465 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 869307001466 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 869307001467 active site 869307001468 KMSKS motif; other site 869307001469 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 869307001470 tRNA binding surface [nucleotide binding]; other site 869307001471 anticodon binding site; other site 869307001472 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 869307001473 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 869307001474 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 869307001475 Fic/DOC family; Region: Fic; pfam02661 869307001478 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 869307001479 putative active site [active] 869307001480 catalytic site [active] 869307001481 transcriptional antiterminator BglG; Provisional; Region: PRK09772 869307001482 CAT RNA binding domain; Region: CAT_RBD; smart01061 869307001483 PRD domain; Region: PRD; pfam00874 869307001484 PRD domain; Region: PRD; pfam00874 869307001485 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 869307001486 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 869307001487 active site turn [active] 869307001488 phosphorylation site [posttranslational modification] 869307001489 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869307001490 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 869307001491 HPr interaction site; other site 869307001492 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869307001493 active site 869307001494 phosphorylation site [posttranslational modification] 869307001495 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869307001496 beta-galactosidase; Region: BGL; TIGR03356 869307001497 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 869307001498 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 869307001499 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 869307001500 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 869307001501 dimer interface [polypeptide binding]; other site 869307001502 motif 1; other site 869307001503 active site 869307001504 motif 2; other site 869307001505 motif 3; other site 869307001506 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869307001507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307001508 Coenzyme A binding pocket [chemical binding]; other site 869307001509 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 869307001510 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 869307001511 putative tRNA-binding site [nucleotide binding]; other site 869307001512 B3/4 domain; Region: B3_4; pfam03483 869307001513 tRNA synthetase B5 domain; Region: B5; smart00874 869307001514 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 869307001515 dimer interface [polypeptide binding]; other site 869307001516 motif 1; other site 869307001517 motif 3; other site 869307001518 motif 2; other site 869307001519 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 869307001520 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 869307001521 putative catalytic site [active] 869307001522 putative metal binding site [ion binding]; other site 869307001523 putative phosphate binding site [ion binding]; other site 869307001525 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 869307001526 non-specific DNA binding site [nucleotide binding]; other site 869307001527 salt bridge; other site 869307001528 sequence-specific DNA binding site [nucleotide binding]; other site 869307001529 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 869307001530 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 869307001531 THF binding site; other site 869307001532 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 869307001533 substrate binding site [chemical binding]; other site 869307001534 THF binding site; other site 869307001535 zinc-binding site [ion binding]; other site 869307001536 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 869307001537 FAD binding site [chemical binding]; other site 869307001538 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 869307001539 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 869307001540 RNase E interface [polypeptide binding]; other site 869307001541 trimer interface [polypeptide binding]; other site 869307001542 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 869307001543 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 869307001544 RNase E interface [polypeptide binding]; other site 869307001545 trimer interface [polypeptide binding]; other site 869307001546 active site 869307001547 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 869307001548 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 869307001549 RNA binding site [nucleotide binding]; other site 869307001550 domain interface; other site 869307001551 serine O-acetyltransferase; Region: cysE; TIGR01172 869307001552 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 869307001553 trimer interface [polypeptide binding]; other site 869307001554 active site 869307001555 substrate binding site [chemical binding]; other site 869307001556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307001557 Coenzyme A binding pocket [chemical binding]; other site 869307001558 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307001559 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307001560 Coenzyme A binding pocket [chemical binding]; other site 869307001561 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 869307001562 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 869307001563 active site 869307001564 HIGH motif; other site 869307001565 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 869307001566 KMSKS motif; other site 869307001567 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 869307001568 tRNA binding surface [nucleotide binding]; other site 869307001569 anticodon binding site; other site 869307001570 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 869307001571 active site 869307001572 metal binding site [ion binding]; metal-binding site 869307001573 dimerization interface [polypeptide binding]; other site 869307001574 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 869307001575 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 869307001576 hyperosmolarity resistance protein Ebh, N-terminal domain; Region: hyperosmo_Ebh; TIGR04264 869307001578 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 869307001579 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869307001580 FtsX-like permease family; Region: FtsX; pfam02687 869307001581 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307001582 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869307001583 Walker A/P-loop; other site 869307001584 ATP binding site [chemical binding]; other site 869307001585 Q-loop/lid; other site 869307001586 ABC transporter signature motif; other site 869307001587 Walker B; other site 869307001588 D-loop; other site 869307001589 H-loop/switch region; other site 869307001590 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869307001591 FtsX-like permease family; Region: FtsX; pfam02687 869307001592 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307001593 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 869307001594 active site 869307001595 phosphorylation site [posttranslational modification] 869307001596 intermolecular recognition site; other site 869307001597 dimerization interface [polypeptide binding]; other site 869307001598 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 869307001599 DNA binding site [nucleotide binding] 869307001600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869307001601 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 869307001602 dimerization interface [polypeptide binding]; other site 869307001603 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 869307001604 dimer interface [polypeptide binding]; other site 869307001605 phosphorylation site [posttranslational modification] 869307001606 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 869307001607 ATP binding site [chemical binding]; other site 869307001608 Mg2+ binding site [ion binding]; other site 869307001609 G-X-G motif; other site 869307001610 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 869307001611 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 869307001612 intersubunit interface [polypeptide binding]; other site 869307001613 active site 869307001614 zinc binding site [ion binding]; other site 869307001615 Na+ binding site [ion binding]; other site 869307001617 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 869307001618 dimer interface [polypeptide binding]; other site 869307001619 conserved gate region; other site 869307001620 putative PBP binding loops; other site 869307001621 ABC-ATPase subunit interface; other site 869307001622 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 869307001623 dimer interface [polypeptide binding]; other site 869307001624 conserved gate region; other site 869307001625 putative PBP binding loops; other site 869307001626 ABC-ATPase subunit interface; other site 869307001627 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 869307001628 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307001629 substrate binding pocket [chemical binding]; other site 869307001630 membrane-bound complex binding site; other site 869307001631 hinge residues; other site 869307001632 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869307001633 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869307001634 Walker A/P-loop; other site 869307001635 ATP binding site [chemical binding]; other site 869307001636 Q-loop/lid; other site 869307001637 ABC transporter signature motif; other site 869307001638 Walker B; other site 869307001639 D-loop; other site 869307001640 H-loop/switch region; other site 869307001641 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 869307001642 DHH family; Region: DHH; pfam01368 869307001643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4199 869307001644 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 869307001645 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869307001646 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 869307001647 Predicted esterase [General function prediction only]; Region: COG0627 869307001648 S-formylglutathione hydrolase; Region: PLN02442 869307001649 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 869307001650 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 869307001651 FemAB family; Region: FemAB; pfam02388 869307001652 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 869307001653 active site 869307001654 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 869307001655 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 869307001656 GIY-YIG motif/motif A; other site 869307001657 active site 869307001658 catalytic site [active] 869307001659 putative DNA binding site [nucleotide binding]; other site 869307001660 metal binding site [ion binding]; metal-binding site 869307001661 UvrB/uvrC motif; Region: UVR; pfam02151 869307001662 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 869307001663 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 869307001664 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 869307001665 active site 869307001666 metal binding site [ion binding]; metal-binding site 869307001667 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307001668 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 869307001669 substrate binding pocket [chemical binding]; other site 869307001670 membrane-bound complex binding site; other site 869307001671 hinge residues; other site 869307001672 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 869307001673 dimer interface [polypeptide binding]; other site 869307001674 FMN binding site [chemical binding]; other site 869307001675 dipeptidase PepV; Reviewed; Region: PRK07318 869307001676 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 869307001677 active site 869307001678 metal binding site [ion binding]; metal-binding site 869307001679 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 869307001680 putative uracil binding site [chemical binding]; other site 869307001681 putative active site [active] 869307001682 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 869307001684 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 869307001685 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 869307001686 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 869307001687 putative oligomer interface [polypeptide binding]; other site 869307001688 putative active site [active] 869307001689 metal binding site [ion binding]; metal-binding site 869307001691 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 869307001692 DDE superfamily endonuclease; Region: DDE_4; cl17710 869307001694 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 869307001695 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 869307001696 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 869307001697 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 869307001698 23S rRNA interface [nucleotide binding]; other site 869307001699 L7/L12 interface [polypeptide binding]; other site 869307001700 putative thiostrepton binding site; other site 869307001701 L25 interface [polypeptide binding]; other site 869307001702 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 869307001703 mRNA/rRNA interface [nucleotide binding]; other site 869307001705 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 869307001706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307001707 Walker A/P-loop; other site 869307001708 ATP binding site [chemical binding]; other site 869307001709 Q-loop/lid; other site 869307001710 ABC transporter signature motif; other site 869307001711 Walker B; other site 869307001712 D-loop; other site 869307001713 H-loop/switch region; other site 869307001714 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869307001715 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869307001716 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 869307001717 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869307001718 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 869307001719 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 869307001720 putative active site [active] 869307001721 catalytic triad [active] 869307001722 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 869307001723 PA/protease or protease-like domain interface [polypeptide binding]; other site 869307001724 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 869307001725 catalytic residues [active] 869307001726 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 869307001727 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 869307001728 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 869307001729 active site 869307001730 phosphorylation site [posttranslational modification] 869307001731 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 869307001732 active site 869307001733 P-loop; other site 869307001734 phosphorylation site [posttranslational modification] 869307001735 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 869307001736 PTS system sugar-specific permease component; Region: EIIC-GAT; pfam03611 869307001737 YSIRK type signal peptide; Region: YSIRK_signal; pfam04650 869307001738 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 869307001739 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 869307001740 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 869307001741 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 869307001742 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869307001743 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869307001744 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869307001745 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 869307001746 G5 domain; Region: G5; pfam07501 869307001747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 869307001748 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 869307001749 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 869307001750 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 869307001751 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 869307001752 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 869307001753 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 869307001754 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 869307001755 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 869307001756 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 869307001757 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 869307001758 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 869307001759 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 869307001760 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 869307001761 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869307001762 catalytic residues [active] 869307001763 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 869307001764 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 869307001765 SelR domain; Region: SelR; pfam01641 869307001766 Response regulator receiver domain; Region: Response_reg; pfam00072 869307001767 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 869307001768 active site 869307001769 phosphorylation site [posttranslational modification] 869307001770 intermolecular recognition site; other site 869307001771 dimerization interface [polypeptide binding]; other site 869307001772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869307001773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869307001774 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869307001775 Cache domain; Region: Cache_1; pfam02743 869307001776 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 869307001777 dimerization interface [polypeptide binding]; other site 869307001778 Histidine kinase; Region: His_kinase; pfam06580 869307001779 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 869307001780 ATP binding site [chemical binding]; other site 869307001781 Mg2+ binding site [ion binding]; other site 869307001782 G-X-G motif; other site 869307001783 hypothetical protein; Provisional; Region: PRK13690 869307001784 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 869307001785 MARCKS family; Region: MARCKS; pfam02063 869307001786 G5 domain; Region: G5; pfam07501 869307001787 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 869307001788 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 869307001789 aminodeoxychorismate synthase; Provisional; Region: PRK07508 869307001790 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 869307001791 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 869307001792 substrate-cofactor binding pocket; other site 869307001793 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 869307001794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307001795 catalytic residue [active] 869307001796 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 869307001797 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307001798 Excalibur calcium-binding domain; Region: Excalibur; smart00894 869307001799 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 869307001800 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869307001801 nucleotide binding site [chemical binding]; other site 869307001802 thymidylate synthase; Reviewed; Region: thyA; PRK01827 869307001803 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 869307001804 dimerization interface [polypeptide binding]; other site 869307001805 active site 869307001806 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 869307001807 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 869307001808 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 869307001809 GTPases [General function prediction only]; Region: HflX; COG2262 869307001810 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 869307001811 HflX GTPase family; Region: HflX; cd01878 869307001812 G1 box; other site 869307001813 GTP/Mg2+ binding site [chemical binding]; other site 869307001814 Switch I region; other site 869307001815 G2 box; other site 869307001816 G3 box; other site 869307001817 Switch II region; other site 869307001818 G4 box; other site 869307001819 G5 box; other site 869307001820 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 869307001821 ribonuclease Z; Region: RNase_Z; TIGR02651 869307001822 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 869307001823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869307001824 NAD(P) binding site [chemical binding]; other site 869307001825 active site 869307001826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 869307001827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 869307001828 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 869307001829 dimerization interface [polypeptide binding]; other site 869307001830 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 869307001831 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 869307001832 active site residue [active] 869307001833 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869307001834 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 869307001835 RNA binding surface [nucleotide binding]; other site 869307001836 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 869307001837 active site 869307001838 uracil binding [chemical binding]; other site 869307001839 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 869307001840 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 869307001841 G1 box; other site 869307001842 putative GEF interaction site [polypeptide binding]; other site 869307001843 GTP/Mg2+ binding site [chemical binding]; other site 869307001844 Switch I region; other site 869307001845 G2 box; other site 869307001846 G3 box; other site 869307001847 Switch II region; other site 869307001848 G4 box; other site 869307001849 G5 box; other site 869307001850 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 869307001851 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 869307001852 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 869307001853 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 869307001854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869307001855 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869307001856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307001857 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869307001858 Walker A/P-loop; other site 869307001859 ATP binding site [chemical binding]; other site 869307001860 Q-loop/lid; other site 869307001861 ABC transporter signature motif; other site 869307001862 Walker B; other site 869307001863 D-loop; other site 869307001864 H-loop/switch region; other site 869307001865 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 869307001866 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 869307001867 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869307001868 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869307001869 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 869307001870 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 869307001871 homodimer interface [polypeptide binding]; other site 869307001872 active site 869307001873 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 869307001874 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 869307001875 Cell division protein FtsQ; Region: FtsQ; pfam03799 869307001876 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 869307001877 active site 869307001878 dimer interface [polypeptide binding]; other site 869307001879 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307001880 active site 869307001881 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307001882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307001883 Walker A/P-loop; other site 869307001884 ATP binding site [chemical binding]; other site 869307001885 Q-loop/lid; other site 869307001886 ABC transporter signature motif; other site 869307001887 Walker B; other site 869307001888 D-loop; other site 869307001889 H-loop/switch region; other site 869307001890 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 869307001891 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 869307001892 substrate binding pocket [chemical binding]; other site 869307001893 membrane-bound complex binding site; other site 869307001894 hinge residues; other site 869307001896 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 869307001897 dimer interface [polypeptide binding]; other site 869307001898 conserved gate region; other site 869307001899 putative PBP binding loops; other site 869307001900 ABC-ATPase subunit interface; other site 869307001901 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 869307001902 dimer interface [polypeptide binding]; other site 869307001903 conserved gate region; other site 869307001904 putative PBP binding loops; other site 869307001905 ABC-ATPase subunit interface; other site 869307001906 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 869307001907 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 869307001908 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 869307001909 dimer interface [polypeptide binding]; other site 869307001910 putative anticodon binding site; other site 869307001911 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 869307001912 motif 1; other site 869307001913 active site 869307001914 motif 2; other site 869307001915 motif 3; other site 869307001916 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 869307001917 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 869307001918 teramer interface [polypeptide binding]; other site 869307001919 active site 869307001920 FMN binding site [chemical binding]; other site 869307001921 catalytic residues [active] 869307001922 Putative transcription activator [Transcription]; Region: TenA; COG0819 869307001923 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 869307001924 substrate binding site [chemical binding]; other site 869307001925 multimerization interface [polypeptide binding]; other site 869307001926 ATP binding site [chemical binding]; other site 869307001927 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 869307001928 thiamine phosphate binding site [chemical binding]; other site 869307001929 active site 869307001930 pyrophosphate binding site [ion binding]; other site 869307001931 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 869307001932 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869307001933 Walker A/P-loop; other site 869307001934 ATP binding site [chemical binding]; other site 869307001935 ABC transporter; Region: ABC_tran; pfam00005 869307001936 Q-loop/lid; other site 869307001937 ABC transporter signature motif; other site 869307001938 Walker B; other site 869307001939 D-loop; other site 869307001940 H-loop/switch region; other site 869307001941 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307001942 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 869307001943 Walker A/P-loop; other site 869307001944 ATP binding site [chemical binding]; other site 869307001945 Q-loop/lid; other site 869307001946 ABC transporter signature motif; other site 869307001947 Walker B; other site 869307001948 D-loop; other site 869307001949 H-loop/switch region; other site 869307001950 Putative transcription activator [Transcription]; Region: TenA; COG0819 869307001951 Predicted membrane protein [Function unknown]; Region: COG4732 869307001952 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 869307001953 substrate binding site [chemical binding]; other site 869307001954 multimerization interface [polypeptide binding]; other site 869307001955 ATP binding site [chemical binding]; other site 869307001956 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 869307001957 thiamine phosphate binding site [chemical binding]; other site 869307001958 active site 869307001959 pyrophosphate binding site [ion binding]; other site 869307001960 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 869307001961 dimer interface [polypeptide binding]; other site 869307001962 substrate binding site [chemical binding]; other site 869307001963 ATP binding site [chemical binding]; other site 869307001964 Predicted transcriptional regulator [Transcription]; Region: COG3682 869307001965 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 869307001966 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 869307001967 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 869307001968 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 869307001969 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 869307001970 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869307001971 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869307001972 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 869307001973 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 869307001974 PYR/PP interface [polypeptide binding]; other site 869307001975 dimer interface [polypeptide binding]; other site 869307001976 tetramer interface [polypeptide binding]; other site 869307001977 TPP binding site [chemical binding]; other site 869307001978 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 869307001979 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 869307001980 TPP-binding site [chemical binding]; other site 869307001981 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869307001982 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 869307001983 active site 869307001986 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 869307001987 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 869307001988 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 869307001990 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 869307001991 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 869307001992 dimer interface [polypeptide binding]; other site 869307001993 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 869307001994 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 869307001995 putative active site [active] 869307001996 nucleotide binding site [chemical binding]; other site 869307001997 nudix motif; other site 869307001998 putative metal binding site [ion binding]; other site 869307001999 HI0933-like protein; Region: HI0933_like; pfam03486 869307002000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 869307002001 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869307002002 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869307002003 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869307002004 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 869307002005 catalytic motif [active] 869307002006 Zn binding site [ion binding]; other site 869307002007 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307002008 active site 869307002009 Clp protease; Region: CLP_protease; pfam00574 869307002010 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 869307002011 oligomer interface [polypeptide binding]; other site 869307002012 active site residues [active] 869307002013 hypothetical protein; Provisional; Region: PRK02302 869307002014 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 869307002015 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 869307002016 putative ligand binding site [chemical binding]; other site 869307002017 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869307002018 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 869307002019 TM-ABC transporter signature motif; other site 869307002020 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 869307002021 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 869307002022 TM-ABC transporter signature motif; other site 869307002023 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 869307002024 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 869307002025 Walker A/P-loop; other site 869307002026 ATP binding site [chemical binding]; other site 869307002027 Q-loop/lid; other site 869307002028 ABC transporter signature motif; other site 869307002029 Walker B; other site 869307002030 D-loop; other site 869307002031 H-loop/switch region; other site 869307002032 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 869307002033 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 869307002034 Walker A/P-loop; other site 869307002035 ATP binding site [chemical binding]; other site 869307002036 Q-loop/lid; other site 869307002037 ABC transporter signature motif; other site 869307002038 Walker B; other site 869307002039 D-loop; other site 869307002040 H-loop/switch region; other site 869307002041 FOG: CBS domain [General function prediction only]; Region: COG0517 869307002042 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 869307002043 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 869307002044 peptide chain release factor 2; Validated; Region: prfB; PRK00578 869307002045 PCRF domain; Region: PCRF; pfam03462 869307002046 RF-1 domain; Region: RF-1; pfam00472 869307002047 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 869307002048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307002049 Walker A/P-loop; other site 869307002050 ATP binding site [chemical binding]; other site 869307002051 Q-loop/lid; other site 869307002052 ABC transporter signature motif; other site 869307002053 Walker B; other site 869307002054 D-loop; other site 869307002055 H-loop/switch region; other site 869307002056 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 869307002057 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 869307002058 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869307002059 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 869307002060 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 869307002061 active site turn [active] 869307002062 phosphorylation site [posttranslational modification] 869307002063 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 869307002064 HPr interaction site; other site 869307002065 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869307002066 active site 869307002067 phosphorylation site [posttranslational modification] 869307002068 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 869307002069 putative catalytic site [active] 869307002070 putative metal binding site [ion binding]; other site 869307002071 putative phosphate binding site [ion binding]; other site 869307002072 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 869307002073 DEAD-like helicases superfamily; Region: DEXDc; smart00487 869307002074 ATP binding site [chemical binding]; other site 869307002075 Mg++ binding site [ion binding]; other site 869307002076 motif III; other site 869307002077 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 869307002078 nucleotide binding region [chemical binding]; other site 869307002079 ATP-binding site [chemical binding]; other site 869307002080 S-adenosylmethionine synthetase; Validated; Region: PRK05250 869307002081 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 869307002082 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 869307002083 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 869307002084 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 869307002085 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 869307002086 active site 869307002087 FMN binding site [chemical binding]; other site 869307002088 substrate binding site [chemical binding]; other site 869307002089 catalytic residues [active] 869307002090 homodimer interface [polypeptide binding]; other site 869307002091 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 869307002092 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 869307002093 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 869307002094 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 869307002095 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 869307002096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4470 869307002097 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 869307002098 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 869307002099 FeS/SAM binding site; other site 869307002100 VanZ like family; Region: VanZ; pfam04892 869307002101 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869307002102 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307002103 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307002104 ABC transporter; Region: ABC_tran_2; pfam12848 869307002105 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307002106 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 869307002107 active site 869307002108 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 869307002109 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 869307002110 KH domain; Region: KH_4; pfam13083 869307002111 G-X-X-G motif; other site 869307002112 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 869307002113 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 869307002114 RimM N-terminal domain; Region: RimM; pfam01782 869307002115 PRC-barrel domain; Region: PRC; pfam05239 869307002116 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 869307002117 ATP cone domain; Region: ATP-cone; pfam03477 869307002118 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 869307002119 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 869307002120 glutathione reductase; Validated; Region: PRK06116 869307002121 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869307002122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869307002123 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869307002124 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 869307002125 HlyD family secretion protein; Region: HlyD_3; pfam13437 869307002126 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307002127 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869307002128 Walker A/P-loop; other site 869307002129 ATP binding site [chemical binding]; other site 869307002130 Q-loop/lid; other site 869307002131 ABC transporter signature motif; other site 869307002132 Walker B; other site 869307002133 D-loop; other site 869307002134 H-loop/switch region; other site 869307002135 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 869307002136 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 869307002137 FtsX-like permease family; Region: FtsX; pfam02687 869307002138 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 869307002139 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 869307002140 active site 869307002141 HIGH motif; other site 869307002142 KMSKS motif; other site 869307002143 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 869307002144 tRNA binding surface [nucleotide binding]; other site 869307002145 anticodon binding site; other site 869307002146 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 869307002147 dimer interface [polypeptide binding]; other site 869307002148 putative tRNA-binding site [nucleotide binding]; other site 869307002149 Predicted transcriptional regulators [Transcription]; Region: COG1695 869307002150 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 869307002151 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 869307002152 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 869307002153 active site 869307002154 catalytic tetrad [active] 869307002155 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 869307002156 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 869307002157 classical (c) SDRs; Region: SDR_c; cd05233 869307002158 NAD(P) binding site [chemical binding]; other site 869307002159 active site 869307002160 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 869307002161 nudix motif; other site 869307002162 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 869307002163 Phosphoenolpyruvate synthase/pyruvate phosphate dikinase [Carbohydrate transport and metabolism]; Region: PpsA; COG0574 869307002164 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 869307002165 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 869307002166 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 869307002167 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 869307002168 Zn binding site [ion binding]; other site 869307002169 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307002170 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 869307002171 active site 869307002172 phosphorylation site [posttranslational modification] 869307002173 intermolecular recognition site; other site 869307002174 dimerization interface [polypeptide binding]; other site 869307002175 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 869307002176 DNA binding site [nucleotide binding] 869307002177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869307002178 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 869307002179 dimer interface [polypeptide binding]; other site 869307002180 phosphorylation site [posttranslational modification] 869307002181 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 869307002182 ATP binding site [chemical binding]; other site 869307002183 Mg2+ binding site [ion binding]; other site 869307002184 G-X-G motif; other site 869307002185 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 869307002186 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 869307002187 Peptidase family U32; Region: Peptidase_U32; pfam01136 869307002188 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 869307002189 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869307002190 active site 869307002191 catalytic site [active] 869307002192 substrate binding site [chemical binding]; other site 869307002193 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 869307002194 ATP binding site [chemical binding]; other site 869307002195 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 869307002196 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 869307002197 DJ-1 family protein; Region: not_thiJ; TIGR01383 869307002198 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 869307002199 conserved cys residue [active] 869307002200 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 869307002201 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 869307002202 motif II; other site 869307002203 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 869307002204 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 869307002205 Mg2+ binding site [ion binding]; other site 869307002206 G-X-G motif; other site 869307002207 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 869307002208 anchoring element; other site 869307002209 dimer interface [polypeptide binding]; other site 869307002210 ATP binding site [chemical binding]; other site 869307002211 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 869307002212 active site 869307002213 putative metal-binding site [ion binding]; other site 869307002214 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 869307002215 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 869307002217 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 869307002218 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 869307002219 nudix motif; other site 869307002221 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 869307002222 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 869307002223 Walker A motif; other site 869307002224 ATP binding site [chemical binding]; other site 869307002225 Walker B motif; other site 869307002226 arginine finger; other site 869307002227 UvrB/uvrC motif; Region: UVR; pfam02151 869307002228 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 869307002229 Walker A motif; other site 869307002230 ATP binding site [chemical binding]; other site 869307002231 Walker B motif; other site 869307002232 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869307002233 This gene appears to have been derived through a fusion of permease and ATP-binding subunits of a glutamine-transporting ABC transporter 869307002234 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 869307002235 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 869307002236 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 869307002237 homodimer interface [polypeptide binding]; other site 869307002238 NADP binding site [chemical binding]; other site 869307002239 substrate binding site [chemical binding]; other site 869307002240 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 869307002241 putative substrate binding site [chemical binding]; other site 869307002242 putative ATP binding site [chemical binding]; other site 869307002243 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 869307002244 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869307002245 active site 869307002246 dimer interface [polypeptide binding]; other site 869307002247 phosphopentomutase; Provisional; Region: PRK05362 869307002248 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 869307002249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 869307002250 purine nucleoside phosphorylase; Provisional; Region: PRK08202 869307002252 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 869307002253 topology modulation protein; Provisional; Region: PRK07261 869307002254 AAA domain; Region: AAA_17; pfam13207 869307002255 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 869307002256 pantothenate kinase; Provisional; Region: PRK05439 869307002257 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 869307002258 ATP-binding site [chemical binding]; other site 869307002259 CoA-binding site [chemical binding]; other site 869307002260 Mg2+-binding site [ion binding]; other site 869307002261 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869307002262 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 869307002263 S-adenosylmethionine binding site [chemical binding]; other site 869307002264 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 869307002265 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 869307002266 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 869307002267 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 869307002268 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 869307002269 intersubunit interface [polypeptide binding]; other site 869307002270 active site 869307002271 catalytic residue [active] 869307002272 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 869307002273 active site 869307002274 catalytic motif [active] 869307002275 Zn binding site [ion binding]; other site 869307002276 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 869307002277 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 869307002278 ligand binding site [chemical binding]; other site 869307002279 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 869307002280 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 869307002281 Walker A/P-loop; other site 869307002282 ATP binding site [chemical binding]; other site 869307002283 Q-loop/lid; other site 869307002284 ABC transporter signature motif; other site 869307002285 Walker B; other site 869307002286 D-loop; other site 869307002287 H-loop/switch region; other site 869307002288 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 869307002289 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869307002290 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 869307002291 TM-ABC transporter signature motif; other site 869307002292 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869307002293 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 869307002294 TM-ABC transporter signature motif; other site 869307002297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 869307002298 Transposase; Region: DDE_Tnp_ISL3; pfam01610 869307002299 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 869307002300 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 869307002301 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 869307002302 Mg2+ binding site [ion binding]; other site 869307002303 G-X-G motif; other site 869307002304 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 869307002305 anchoring element; other site 869307002306 dimer interface [polypeptide binding]; other site 869307002307 ATP binding site [chemical binding]; other site 869307002308 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 869307002309 active site 869307002310 putative metal-binding site [ion binding]; other site 869307002311 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 869307002312 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 869307002313 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 869307002314 CAP-like domain; other site 869307002315 active site 869307002316 primary dimer interface [polypeptide binding]; other site 869307002317 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869307002318 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 869307002319 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 869307002320 homodimer interface [polypeptide binding]; other site 869307002321 substrate-cofactor binding pocket; other site 869307002322 catalytic residue [active] 869307002323 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 869307002324 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 869307002325 Predicted membrane protein [Function unknown]; Region: COG3819 869307002326 Predicted membrane protein [Function unknown]; Region: COG3817 869307002327 Protein of unknown function (DUF979); Region: DUF979; pfam06166 869307002328 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 869307002329 putative substrate binding pocket [chemical binding]; other site 869307002330 AC domain interface; other site 869307002331 catalytic triad [active] 869307002332 AB domain interface; other site 869307002333 interchain disulfide; other site 869307002334 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 869307002335 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 869307002336 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 869307002337 RNA binding site [nucleotide binding]; other site 869307002338 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 869307002339 RNA binding site [nucleotide binding]; other site 869307002340 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 869307002341 RNA binding site [nucleotide binding]; other site 869307002342 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 869307002343 RNA binding site [nucleotide binding]; other site 869307002345 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 869307002346 GAF domain; Region: GAF_2; pfam13185 869307002347 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 869307002348 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 869307002349 Walker A motif; other site 869307002350 ATP binding site [chemical binding]; other site 869307002351 Walker B motif; other site 869307002352 arginine finger; other site 869307002353 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 869307002354 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 869307002355 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 869307002356 Walker A/P-loop; other site 869307002357 ATP binding site [chemical binding]; other site 869307002358 Q-loop/lid; other site 869307002359 ABC transporter signature motif; other site 869307002360 Walker B; other site 869307002361 D-loop; other site 869307002362 H-loop/switch region; other site 869307002363 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 869307002364 FeS assembly protein SufD; Region: sufD; TIGR01981 869307002365 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 869307002366 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 869307002367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869307002368 catalytic residue [active] 869307002369 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 869307002370 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 869307002371 trimerization site [polypeptide binding]; other site 869307002372 active site 869307002373 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 869307002374 FeS assembly protein SufB; Region: sufB; TIGR01980 869307002375 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 869307002376 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 869307002377 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 869307002378 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 869307002379 Domain of unknown function DUF20; Region: UPF0118; pfam01594 869307002380 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869307002381 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 869307002382 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869307002383 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 869307002384 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 869307002385 putative substrate binding site [chemical binding]; other site 869307002386 putative ATP binding site [chemical binding]; other site 869307002387 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 869307002388 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 869307002389 active site 869307002390 phosphorylation site [posttranslational modification] 869307002391 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 869307002392 active site 869307002393 P-loop; other site 869307002394 phosphorylation site [posttranslational modification] 869307002395 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 869307002396 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 869307002397 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 869307002398 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 869307002399 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 869307002400 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 869307002401 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 869307002402 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869307002403 catalytic residue [active] 869307002404 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 869307002405 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 869307002406 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 869307002407 Ligand Binding Site [chemical binding]; other site 869307002408 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 869307002409 Putative esterase; Region: Esterase; pfam00756 869307002410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 869307002411 Putative esterase; Region: Esterase; pfam00756 869307002413 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 869307002414 HsdM N-terminal domain; Region: HsdM_N; pfam12161 869307002415 Methyltransferase domain; Region: Methyltransf_26; pfam13659 869307002416 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 869307002417 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 869307002418 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 869307002419 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 869307002420 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 869307002421 active site 869307002422 catalytic residues [active] 869307002423 DNA binding site [nucleotide binding] 869307002424 Int/Topo IB signature motif; other site 869307002425 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 869307002426 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 869307002428 Arginine repressor [Transcription]; Region: ArgR; COG1438 869307002429 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869307002430 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869307002431 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 869307002432 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 869307002433 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 869307002434 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 869307002435 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 869307002436 active site 869307002437 PHP Thumb interface [polypeptide binding]; other site 869307002438 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 869307002439 generic binding surface II; other site 869307002440 generic binding surface I; other site 869307002441 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 869307002442 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 869307002443 active site 869307002444 ADP/pyrophosphate binding site [chemical binding]; other site 869307002445 dimerization interface [polypeptide binding]; other site 869307002446 allosteric effector site; other site 869307002447 fructose-1,6-bisphosphate binding site; other site 869307002448 pyruvate kinase; Provisional; Region: PRK05826 869307002449 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 869307002450 domain interfaces; other site 869307002451 active site 869307002453 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 869307002454 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 869307002455 Predicted membrane protein [Function unknown]; Region: COG3689 869307002456 Predicted permeases [General function prediction only]; Region: COG0701 869307002457 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 869307002458 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 869307002459 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 869307002460 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 869307002461 RNA binding site [nucleotide binding]; other site 869307002462 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 869307002463 hypothetical protein; Provisional; Region: PRK04351 869307002464 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 869307002465 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307002466 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869307002467 Walker A/P-loop; other site 869307002468 ATP binding site [chemical binding]; other site 869307002469 Q-loop/lid; other site 869307002470 ABC transporter signature motif; other site 869307002471 Walker B; other site 869307002472 D-loop; other site 869307002473 H-loop/switch region; other site 869307002474 FtsX-like permease family; Region: FtsX; pfam02687 869307002475 disrupted by IS insertion 869307002476 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 869307002477 Helix-turn-helix domain; Region: HTH_38; pfam13936 869307002478 Integrase core domain; Region: rve; pfam00665 869307002479 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 869307002480 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 869307002481 homodimer interface [polypeptide binding]; other site 869307002482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307002483 catalytic residue [active] 869307002484 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 869307002485 Transposase; Region: DEDD_Tnp_IS110; pfam01548 869307002486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 869307002487 spermidine synthase; Provisional; Region: PRK00811 869307002488 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 869307002489 S-adenosylmethionine binding site [chemical binding]; other site 869307002490 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 869307002491 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 869307002492 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 869307002493 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 869307002494 dimer interface [polypeptide binding]; other site 869307002495 active site 869307002496 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869307002497 catalytic residues [active] 869307002498 substrate binding site [chemical binding]; other site 869307002499 agmatine deiminase; Provisional; Region: PRK13551 869307002500 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 869307002501 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 869307002502 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 869307002503 putative active site; other site 869307002504 catalytic triad [active] 869307002505 putative dimer interface [polypeptide binding]; other site 869307002506 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 869307002507 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869307002508 active site 869307002509 motif I; other site 869307002510 motif II; other site 869307002511 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 869307002512 CAAX protease self-immunity; Region: Abi; pfam02517 869307002513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 869307002514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 869307002515 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 869307002516 dimerization interface [polypeptide binding]; other site 869307002517 lipoprotein signal peptidase; Provisional; Region: PRK14797 869307002518 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869307002519 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 869307002520 RNA binding surface [nucleotide binding]; other site 869307002521 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869307002522 active site 869307002523 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 869307002524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869307002525 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307002526 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 869307002527 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 869307002528 nucleotide binding site [chemical binding]; other site 869307002529 homotetrameric interface [polypeptide binding]; other site 869307002530 putative phosphate binding site [ion binding]; other site 869307002531 putative allosteric binding site; other site 869307002532 PUA domain; Region: PUA; pfam01472 869307002533 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 869307002534 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 869307002535 putative catalytic cysteine [active] 869307002536 pyrroline-5-carboxylate reductase; Region: PLN02688 869307002537 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 869307002538 thymidylate kinase; Validated; Region: tmk; PRK00698 869307002539 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 869307002540 TMP-binding site; other site 869307002541 ATP-binding site [chemical binding]; other site 869307002542 DNA polymerase III subunit delta'; Validated; Region: PRK07276 869307002543 DNA polymerase III subunit delta'; Validated; Region: PRK08485 869307002544 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 869307002545 Predicted methyltransferases [General function prediction only]; Region: COG0313 869307002546 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 869307002547 putative SAM binding site [chemical binding]; other site 869307002548 putative homodimer interface [polypeptide binding]; other site 869307002549 Uncharacterized conserved protein [Function unknown]; Region: COG4283 869307002550 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 869307002553 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 869307002554 Glucose inhibited division protein A; Region: GIDA; pfam01134 869307002555 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 869307002556 putative nucleotide binding site [chemical binding]; other site 869307002557 uridine monophosphate binding site [chemical binding]; other site 869307002558 homohexameric interface [polypeptide binding]; other site 869307002559 ribosome recycling factor; Reviewed; Region: frr; PRK00083 869307002560 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 869307002561 hinge region; other site 869307002562 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 869307002563 S1 domain; Region: S1_2; pfam13509 869307002564 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 869307002565 hypothetical protein; Provisional; Region: PRK13672 869307002566 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 869307002567 PhoH-like protein; Region: PhoH; pfam02562 869307002568 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307002569 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307002570 Coenzyme A binding pocket [chemical binding]; other site 869307002573 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307002574 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869307002575 SLBB domain; Region: SLBB; pfam10531 869307002576 comEA protein; Region: comE; TIGR01259 869307002577 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 869307002578 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 869307002579 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 869307002580 Competence protein; Region: Competence; pfam03772 869307002581 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 869307002582 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 869307002583 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869307002584 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869307002585 Walker A/P-loop; other site 869307002586 ATP binding site [chemical binding]; other site 869307002587 Q-loop/lid; other site 869307002588 ABC transporter signature motif; other site 869307002589 Walker B; other site 869307002590 D-loop; other site 869307002591 H-loop/switch region; other site 869307002592 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 869307002593 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 869307002594 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 869307002595 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 869307002596 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 869307002597 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 869307002598 23S rRNA binding site [nucleotide binding]; other site 869307002599 L21 binding site [polypeptide binding]; other site 869307002600 L13 binding site [polypeptide binding]; other site 869307002601 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869307002602 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 869307002603 dimer interface [polypeptide binding]; other site 869307002604 active site 869307002605 metal binding site [ion binding]; metal-binding site 869307002606 glutathione binding site [chemical binding]; other site 869307002607 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 869307002608 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 869307002609 FAD binding pocket [chemical binding]; other site 869307002610 FAD binding motif [chemical binding]; other site 869307002611 phosphate binding motif [ion binding]; other site 869307002612 beta-alpha-beta structure motif; other site 869307002613 NAD binding pocket [chemical binding]; other site 869307002614 Iron coordination center [ion binding]; other site 869307002615 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 869307002616 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 869307002617 heterodimer interface [polypeptide binding]; other site 869307002618 active site 869307002619 FMN binding site [chemical binding]; other site 869307002620 homodimer interface [polypeptide binding]; other site 869307002621 substrate binding site [chemical binding]; other site 869307002622 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307002623 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 869307002624 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 869307002625 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 869307002626 Domain of unknown function (DUF814); Region: DUF814; pfam05670 869307002627 metal-binding heat shock protein; Provisional; Region: PRK00016 869307002628 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 869307002629 GTPase Era; Reviewed; Region: era; PRK00089 869307002630 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 869307002631 G1 box; other site 869307002632 GTP/Mg2+ binding site [chemical binding]; other site 869307002633 Switch I region; other site 869307002634 G2 box; other site 869307002635 Switch II region; other site 869307002636 G3 box; other site 869307002637 G4 box; other site 869307002638 G5 box; other site 869307002639 KH domain; Region: KH_2; pfam07650 869307002640 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 869307002641 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 869307002642 DNA binding site [nucleotide binding] 869307002643 catalytic residue [active] 869307002644 H2TH interface [polypeptide binding]; other site 869307002645 putative catalytic residues [active] 869307002646 turnover-facilitating residue; other site 869307002647 intercalation triad [nucleotide binding]; other site 869307002648 8OG recognition residue [nucleotide binding]; other site 869307002649 putative reading head residues; other site 869307002650 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 869307002651 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 869307002652 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 869307002653 dephospho-CoA kinase; Region: TIGR00152 869307002654 CoA-binding site [chemical binding]; other site 869307002655 ATP-binding [chemical binding]; other site 869307002656 drug efflux system protein MdtG; Provisional; Region: PRK09874 869307002657 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 869307002658 putative substrate translocation pore; other site 869307002659 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 869307002660 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 869307002661 ribonuclease R; Region: RNase_R; TIGR02063 869307002662 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 869307002663 RNB domain; Region: RNB; pfam00773 869307002664 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 869307002665 RNA binding site [nucleotide binding]; other site 869307002666 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 869307002667 SmpB-tmRNA interface; other site 869307002668 tellurite resistance protein TehB; Provisional; Region: PRK12335 869307002669 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 869307002670 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 869307002671 S-adenosylmethionine binding site [chemical binding]; other site 869307002672 Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]; Region: CoiA; COG4469 869307002673 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 869307002674 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 869307002675 active site 869307002676 Zn binding site [ion binding]; other site 869307002677 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 869307002678 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 869307002679 S-adenosylmethionine binding site [chemical binding]; other site 869307002680 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 869307002681 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 869307002685 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 869307002686 catalytic core [active] 869307002687 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 869307002688 putative deacylase active site [active] 869307002689 Predicted membrane protein [Function unknown]; Region: COG2035 869307002690 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 869307002691 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 869307002692 active site 869307002693 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 869307002694 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 869307002695 Substrate binding site; other site 869307002696 Mg++ binding site; other site 869307002697 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 869307002698 active site 869307002699 substrate binding site [chemical binding]; other site 869307002700 CoA binding site [chemical binding]; other site 869307002701 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 869307002702 dimer interface [polypeptide binding]; other site 869307002703 ADP-ribose binding site [chemical binding]; other site 869307002704 active site 869307002705 nudix motif; other site 869307002706 metal binding site [ion binding]; metal-binding site 869307002707 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 869307002708 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 869307002709 MarR family; Region: MarR_2; cl17246 869307002710 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 869307002711 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 869307002712 active site 869307002713 catalytic site [active] 869307002714 substrate binding site [chemical binding]; other site 869307002715 Membrane domain of membrane-anchored glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: COG4781 869307002716 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 869307002717 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 869307002718 putative active site [active] 869307002719 catalytic site [active] 869307002720 putative metal binding site [ion binding]; other site 869307002722 Transmembrane domain of the Epidermal Growth Factor Receptor family of Protein Tyrosine Kinases; Region: TM_EGFR-like; cl17045 869307002723 dimer interface [polypeptide binding]; other site 869307002724 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 869307002725 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 869307002726 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 869307002727 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869307002728 catalytic residues [active] 869307002729 amino acid transporter; Region: 2A0306; TIGR00909 869307002730 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 869307002731 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869307002732 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 869307002733 metal binding site [ion binding]; metal-binding site 869307002734 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869307002735 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307002736 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307002737 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307002738 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869307002739 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307002740 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307002741 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307002742 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307002746 peptidase T; Region: peptidase-T; TIGR01882 869307002747 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 869307002748 metal binding site [ion binding]; metal-binding site 869307002749 dimer interface [polypeptide binding]; other site 869307002750 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 869307002751 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 869307002752 C-terminal domain interface [polypeptide binding]; other site 869307002753 active site 869307002754 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 869307002755 active site 869307002756 N-terminal domain interface [polypeptide binding]; other site 869307002757 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 869307002758 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 869307002759 Predicted membrane protein [Function unknown]; Region: COG2246 869307002760 GtrA-like protein; Region: GtrA; pfam04138 869307002761 Predicted membrane protein [Function unknown]; Region: COG4708 869307002762 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 869307002763 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 869307002764 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 869307002765 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 869307002766 dimer interface [polypeptide binding]; other site 869307002767 active site 869307002768 catalytic residue [active] 869307002769 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 869307002770 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 869307002771 trmE is a tRNA modification GTPase; Region: trmE; cd04164 869307002772 G1 box; other site 869307002773 GTP/Mg2+ binding site [chemical binding]; other site 869307002774 Switch I region; other site 869307002775 G2 box; other site 869307002776 Switch II region; other site 869307002777 G3 box; other site 869307002778 G4 box; other site 869307002779 G5 box; other site 869307002780 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 869307002781 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 869307002782 active site 1 [active] 869307002783 dimer interface [polypeptide binding]; other site 869307002784 hexamer interface [polypeptide binding]; other site 869307002785 active site 2 [active] 869307002786 thymidine kinase; Provisional; Region: PRK04296 869307002787 peptide chain release factor 1; Validated; Region: prfA; PRK00591 869307002788 This domain is found in peptide chain release factors; Region: PCRF; smart00937 869307002789 RF-1 domain; Region: RF-1; pfam00472 869307002790 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 869307002791 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 869307002792 S-adenosylmethionine binding site [chemical binding]; other site 869307002793 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 869307002794 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869307002795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307002796 Coenzyme A binding pocket [chemical binding]; other site 869307002797 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 869307002798 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 869307002799 dimer interface [polypeptide binding]; other site 869307002800 active site 869307002801 glycine-pyridoxal phosphate binding site [chemical binding]; other site 869307002802 folate binding site [chemical binding]; other site 869307002803 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 869307002804 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 869307002805 Lysozyme-like; Region: Lysozyme_like; pfam13702 869307002806 Predicted secreted protein [Function unknown]; Region: COG4086 869307002807 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 869307002808 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 869307002809 TRAM domain; Region: TRAM; cl01282 869307002810 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 869307002811 S-adenosylmethionine binding site [chemical binding]; other site 869307002812 Predicted transcriptional regulator [Transcription]; Region: COG3655 869307002813 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 869307002814 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 869307002815 siderophore binding site; other site 869307002816 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 869307002817 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 869307002818 ABC-ATPase subunit interface; other site 869307002819 dimer interface [polypeptide binding]; other site 869307002820 putative PBP binding regions; other site 869307002821 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 869307002822 ABC-ATPase subunit interface; other site 869307002823 dimer interface [polypeptide binding]; other site 869307002824 putative PBP binding regions; other site 869307002825 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 869307002826 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 869307002827 Walker A/P-loop; other site 869307002828 ATP binding site [chemical binding]; other site 869307002829 Q-loop/lid; other site 869307002830 ABC transporter signature motif; other site 869307002831 Walker B; other site 869307002832 D-loop; other site 869307002833 H-loop/switch region; other site 869307002835 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 869307002837 Domain of unknown function (DUF4343); Region: DUF4343; pfam14243 869307002838 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 869307002839 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 869307002840 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 869307002841 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 869307002842 homodimer interface [polypeptide binding]; other site 869307002843 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 869307002844 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 869307002845 active site 869307002846 homodimer interface [polypeptide binding]; other site 869307002847 catalytic site [active] 869307002848 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307002849 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 869307002850 non-specific DNA binding site [nucleotide binding]; other site 869307002851 salt bridge; other site 869307002852 sequence-specific DNA binding site [nucleotide binding]; other site 869307002853 Zeta toxin; Region: Zeta_toxin; pfam06414 869307002854 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 869307002855 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 869307002856 AAA domain; Region: AAA_21; pfam13304 869307002857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307002858 ABC transporter signature motif; other site 869307002859 Walker B; other site 869307002860 D-loop; other site 869307002861 H-loop/switch region; other site 869307002862 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 869307002864 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 869307002865 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 869307002866 ATP-grasp domain; Region: ATP-grasp_4; cl17255 869307002867 Enolase [Carbohydrate transport and metabolism]; Region: Eno; COG0148 869307002868 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 869307002869 metal binding site [ion binding]; metal-binding site 869307002870 substrate binding pocket [chemical binding]; other site 869307002871 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 869307002872 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 869307002873 homodimer interface [polypeptide binding]; other site 869307002874 substrate-cofactor binding pocket; other site 869307002875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307002876 catalytic residue [active] 869307002877 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 869307002878 TPP-binding site [chemical binding]; other site 869307002879 dimer interface [polypeptide binding]; other site 869307002880 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 869307002881 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 869307002882 PYR/PP interface [polypeptide binding]; other site 869307002883 dimer interface [polypeptide binding]; other site 869307002884 TPP binding site [chemical binding]; other site 869307002885 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869307002886 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 869307002887 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 869307002888 inhibitor-cofactor binding pocket; inhibition site 869307002889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307002890 catalytic residue [active] 869307002891 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 869307002892 active site 869307002893 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 869307002894 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cd03174 869307002895 active site 869307002896 catalytic residues [active] 869307002897 metal binding site [ion binding]; metal-binding site 869307002898 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 869307002899 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 869307002900 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 869307002901 tetramer interface [polypeptide binding]; other site 869307002902 active site 869307002903 Mg2+/Mn2+ binding site [ion binding]; other site 869307002904 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 869307002905 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 869307002906 PYR/PP interface [polypeptide binding]; other site 869307002907 dimer interface [polypeptide binding]; other site 869307002908 TPP binding site [chemical binding]; other site 869307002909 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 869307002910 TPP-binding site [chemical binding]; other site 869307002911 hypothetical protein; Validated; Region: PRK07080 869307002912 acyl carrier protein; Provisional; Region: PRK07081 869307002913 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 869307002914 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 869307002915 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307002916 Walker A/P-loop; other site 869307002917 ATP binding site [chemical binding]; other site 869307002918 Q-loop/lid; other site 869307002919 ABC transporter signature motif; other site 869307002920 Walker B; other site 869307002921 D-loop; other site 869307002922 H-loop/switch region; other site 869307002923 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 869307002924 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869307002925 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 869307002928 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307002929 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 869307002930 non-specific DNA binding site [nucleotide binding]; other site 869307002931 salt bridge; other site 869307002932 sequence-specific DNA binding site [nucleotide binding]; other site 869307002934 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 869307002935 conserved cys residue [active] 869307002936 Phosphotransferase enzyme family; Region: APH; pfam01636 869307002937 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 869307002938 active site 869307002939 ATP binding site [chemical binding]; other site 869307002940 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 869307002941 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 869307002942 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 869307002943 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 869307002944 zinc binding site [ion binding]; other site 869307002945 putative ligand binding site [chemical binding]; other site 869307002946 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 869307002947 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 869307002948 TM-ABC transporter signature motif; other site 869307002949 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 869307002950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307002951 Walker A/P-loop; other site 869307002952 ATP binding site [chemical binding]; other site 869307002953 Q-loop/lid; other site 869307002954 ABC transporter signature motif; other site 869307002955 Walker B; other site 869307002956 D-loop; other site 869307002957 H-loop/switch region; other site 869307002958 DNA primase; Validated; Region: dnaG; PRK05667 869307002959 CHC2 zinc finger; Region: zf-CHC2; pfam01807 869307002960 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 869307002961 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 869307002962 active site 869307002963 metal binding site [ion binding]; metal-binding site 869307002964 interdomain interaction site; other site 869307002965 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 869307002966 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 869307002967 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 869307002968 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 869307002969 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 869307002970 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 869307002971 DNA binding residues [nucleotide binding] 869307002972 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 869307002973 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869307002974 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 869307002975 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869307002976 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 869307002977 putative ADP-binding pocket [chemical binding]; other site 869307002978 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 869307002979 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 869307002980 GTPase CgtA; Reviewed; Region: obgE; PRK12297 869307002981 GTP1/OBG; Region: GTP1_OBG; pfam01018 869307002982 Obg GTPase; Region: Obg; cd01898 869307002983 G1 box; other site 869307002984 GTP/Mg2+ binding site [chemical binding]; other site 869307002985 Switch I region; other site 869307002986 G2 box; other site 869307002987 G3 box; other site 869307002988 Switch II region; other site 869307002989 G4 box; other site 869307002990 G5 box; other site 869307002991 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 869307002992 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 869307002993 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 869307002994 hinge; other site 869307002995 active site 869307002996 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307002997 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869307002998 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 869307002999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307003000 DNA-binding site [nucleotide binding]; DNA binding site 869307003001 DRTGG domain; Region: DRTGG; pfam07085 869307003002 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 869307003003 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 869307003004 active site 2 [active] 869307003005 active site 1 [active] 869307003006 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 869307003007 active site 869307003009 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 869307003010 Part of AAA domain; Region: AAA_19; pfam13245 869307003011 Family description; Region: UvrD_C_2; pfam13538 869307003012 hypothetical protein; Reviewed; Region: PRK00024 869307003013 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 869307003014 MPN+ (JAMM) motif; other site 869307003015 Zinc-binding site [ion binding]; other site 869307003016 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 869307003017 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 869307003018 catalytic triad [active] 869307003019 AT-rich DNA-binding protein [General function prediction only]; Region: COG2344 869307003020 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 869307003021 CoA binding domain; Region: CoA_binding; pfam02629 869307003022 Putative amino acid metabolism; Region: DUF1831; pfam08866 869307003023 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 869307003024 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 869307003025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 869307003026 catalytic residue [active] 869307003027 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 869307003028 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 869307003029 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307003030 active site 869307003031 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 869307003032 putative active site [active] 869307003033 putative metal binding residues [ion binding]; other site 869307003034 signature motif; other site 869307003035 putative triphosphate binding site [ion binding]; other site 869307003036 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 869307003037 synthetase active site [active] 869307003038 NTP binding site [chemical binding]; other site 869307003039 metal binding site [ion binding]; metal-binding site 869307003040 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 869307003041 ATP-NAD kinase; Region: NAD_kinase; pfam01513 869307003042 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869307003043 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 869307003044 RNA binding surface [nucleotide binding]; other site 869307003045 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869307003046 active site 869307003047 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 869307003049 hypothetical protein; Validated; Region: PRK00153 869307003051 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 869307003052 Predicted ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG2868 869307003053 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 869307003054 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 869307003055 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 869307003056 active site 869307003057 Riboflavin kinase; Region: Flavokinase; smart00904 869307003058 Uncharacterized conserved protein [Function unknown]; Region: COG1284 869307003059 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869307003060 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869307003061 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 869307003062 EDD domain protein, DegV family; Region: DegV; TIGR00762 869307003063 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869307003064 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 869307003065 IHF dimer interface [polypeptide binding]; other site 869307003066 IHF - DNA interface [nucleotide binding]; other site 869307003067 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869307003068 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307003069 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307003070 ABC transporter; Region: ABC_tran_2; pfam12848 869307003071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307003072 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 869307003073 non-specific DNA binding site [nucleotide binding]; other site 869307003074 salt bridge; other site 869307003075 sequence-specific DNA binding site [nucleotide binding]; other site 869307003076 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 869307003077 H+ Antiporter protein; Region: 2A0121; TIGR00900 869307003078 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 869307003079 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 869307003080 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 869307003081 nucleotide binding pocket [chemical binding]; other site 869307003082 K-X-D-G motif; other site 869307003083 catalytic site [active] 869307003084 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 869307003085 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 869307003086 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 869307003087 Dimer interface [polypeptide binding]; other site 869307003088 BRCT sequence motif; other site 869307003089 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cl04227 869307003090 pullulanase, type I; Region: pulA_typeI; TIGR02104 869307003091 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 869307003092 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 869307003093 Ca binding site [ion binding]; other site 869307003094 active site 869307003095 catalytic site [active] 869307003096 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 869307003097 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 869307003098 tetrameric interface [polypeptide binding]; other site 869307003099 activator binding site; other site 869307003100 NADP binding site [chemical binding]; other site 869307003101 substrate binding site [chemical binding]; other site 869307003102 catalytic residues [active] 869307003103 glycogen branching enzyme; Provisional; Region: PRK12313 869307003104 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 869307003105 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 869307003106 active site 869307003107 catalytic site [active] 869307003108 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 869307003109 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 869307003110 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 869307003111 ligand binding site; other site 869307003112 oligomer interface; other site 869307003113 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 869307003114 dimer interface [polypeptide binding]; other site 869307003115 N-terminal domain interface [polypeptide binding]; other site 869307003116 sulfate 1 binding site; other site 869307003117 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 869307003118 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 869307003119 active site 869307003120 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 869307003121 dimer interface [polypeptide binding]; other site 869307003122 N-terminal domain interface [polypeptide binding]; other site 869307003123 sulfate 1 binding site; other site 869307003124 glycogen synthase; Provisional; Region: glgA; PRK00654 869307003125 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 869307003126 ADP-binding pocket [chemical binding]; other site 869307003127 homodimer interface [polypeptide binding]; other site 869307003130 Uncharacterized conserved protein [Function unknown]; Region: COG5506 869307003131 enolase; Provisional; Region: eno; PRK00077 869307003132 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 869307003133 dimer interface [polypeptide binding]; other site 869307003134 metal binding site [ion binding]; metal-binding site 869307003135 substrate binding pocket [chemical binding]; other site 869307003138 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 869307003139 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 869307003140 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 869307003141 Part of AAA domain; Region: AAA_19; pfam13245 869307003142 Family description; Region: UvrD_C_2; pfam13538 869307003143 Family description; Region: UvrD_C_2; pfam13538 869307003144 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 869307003145 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869307003146 G5 domain; Region: G5; pfam07501 869307003147 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 869307003148 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 869307003149 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 869307003150 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 869307003151 GTP/Mg2+ binding site [chemical binding]; other site 869307003152 G4 box; other site 869307003153 G5 box; other site 869307003154 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 869307003155 G1 box; other site 869307003156 G1 box; other site 869307003157 GTP/Mg2+ binding site [chemical binding]; other site 869307003158 Switch I region; other site 869307003159 G2 box; other site 869307003160 G2 box; other site 869307003161 G3 box; other site 869307003162 G3 box; other site 869307003163 Switch II region; other site 869307003164 Switch II region; other site 869307003165 G5 box; other site 869307003166 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 869307003167 RNA/DNA hybrid binding site [nucleotide binding]; other site 869307003168 active site 869307003169 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 869307003170 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 869307003171 Cl- selectivity filter; other site 869307003172 Cl- binding residues [ion binding]; other site 869307003173 pore gating glutamate residue; other site 869307003174 dimer interface [polypeptide binding]; other site 869307003175 H+/Cl- coupling transport residue; other site 869307003176 TrkA-C domain; Region: TrkA_C; pfam02080 869307003177 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 869307003178 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 869307003179 active site 869307003180 DNA binding site [nucleotide binding] 869307003181 Int/Topo IB signature motif; other site 869307003182 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 869307003183 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 869307003184 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 869307003185 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 869307003186 E3 interaction surface; other site 869307003187 lipoyl attachment site [posttranslational modification]; other site 869307003188 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 869307003189 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 869307003190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869307003191 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869307003192 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 869307003193 e3 binding domain; Region: E3_binding; pfam02817 869307003194 e3 binding domain; Region: E3_binding; pfam02817 869307003195 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 869307003196 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 869307003197 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 869307003198 alpha subunit interface [polypeptide binding]; other site 869307003199 TPP binding site [chemical binding]; other site 869307003200 heterodimer interface [polypeptide binding]; other site 869307003201 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869307003202 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 869307003203 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 869307003204 tetramer interface [polypeptide binding]; other site 869307003205 TPP-binding site [chemical binding]; other site 869307003206 heterodimer interface [polypeptide binding]; other site 869307003207 phosphorylation loop region [posttranslational modification] 869307003208 multidrug efflux protein; Reviewed; Region: PRK01766 869307003209 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 869307003210 cation binding site [ion binding]; other site 869307003211 dihydroorotase; Validated; Region: pyrC; PRK09357 869307003212 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 869307003213 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 869307003214 active site 869307003215 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 869307003216 putative active site [active] 869307003217 nucleotide binding site [chemical binding]; other site 869307003218 nudix motif; other site 869307003219 putative metal binding site [ion binding]; other site 869307003220 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 869307003221 ligand binding site [chemical binding]; other site 869307003222 active site 869307003223 UGI interface [polypeptide binding]; other site 869307003224 catalytic site [active] 869307003225 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 869307003226 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 869307003227 motif II; other site 869307003228 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 869307003229 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 869307003230 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307003231 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307003232 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 869307003233 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 869307003234 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 869307003235 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 869307003236 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 869307003237 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 869307003238 dimerization domain swap beta strand [polypeptide binding]; other site 869307003239 regulatory protein interface [polypeptide binding]; other site 869307003240 active site 869307003241 regulatory phosphorylation site [posttranslational modification]; other site 869307003242 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 869307003243 catalytic residues [active] 869307003244 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 869307003245 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 869307003246 Class I ribonucleotide reductase; Region: RNR_I; cd01679 869307003247 active site 869307003248 dimer interface [polypeptide binding]; other site 869307003249 catalytic residues [active] 869307003250 effector binding site; other site 869307003251 R2 peptide binding site; other site 869307003252 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 869307003253 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 869307003254 dimer interface [polypeptide binding]; other site 869307003255 putative radical transfer pathway; other site 869307003256 diiron center [ion binding]; other site 869307003257 tyrosyl radical; other site 869307003258 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869307003259 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 869307003260 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869307003261 6-phospho-beta-galactosidase; Provisional; Region: PRK13511 869307003262 beta-galactosidase; Region: BGL; TIGR03356 869307003263 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 869307003264 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869307003265 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 869307003266 active site 869307003267 P-loop; other site 869307003268 phosphorylation site [posttranslational modification] 869307003269 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 869307003270 methionine cluster; other site 869307003271 active site 869307003272 phosphorylation site [posttranslational modification] 869307003273 metal binding site [ion binding]; metal-binding site 869307003274 CAT RNA binding domain; Region: CAT_RBD; smart01061 869307003275 transcriptional antiterminator BglG; Provisional; Region: PRK09772 869307003276 PRD domain; Region: PRD; pfam00874 869307003277 PRD domain; Region: PRD; pfam00874 869307003278 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 869307003279 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 869307003280 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 869307003281 putative substrate binding site [chemical binding]; other site 869307003282 putative ATP binding site [chemical binding]; other site 869307003283 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 869307003284 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 869307003285 N-terminal truncation due to IS insertion 869307003287 C-terminal truncation due to IS insertion 869307003288 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 869307003289 active site 869307003290 phosphorylation site [posttranslational modification] 869307003291 GTP-binding protein LepA; Provisional; Region: PRK05433 869307003292 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 869307003293 G1 box; other site 869307003294 putative GEF interaction site [polypeptide binding]; other site 869307003295 GTP/Mg2+ binding site [chemical binding]; other site 869307003296 Switch I region; other site 869307003297 G2 box; other site 869307003298 G3 box; other site 869307003299 Switch II region; other site 869307003300 G4 box; other site 869307003301 G5 box; other site 869307003302 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 869307003303 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 869307003304 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 869307003305 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 869307003306 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 869307003307 active site 869307003308 metal binding site [ion binding]; metal-binding site 869307003309 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 869307003310 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 869307003311 Walker A/P-loop; other site 869307003312 ATP binding site [chemical binding]; other site 869307003313 Q-loop/lid; other site 869307003314 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 869307003315 ABC transporter signature motif; other site 869307003316 Walker B; other site 869307003317 D-loop; other site 869307003318 H-loop/switch region; other site 869307003319 Arginine repressor [Transcription]; Region: ArgR; COG1438 869307003320 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869307003321 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869307003322 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 869307003323 S4 RNA-binding domain; Region: S4; smart00363 869307003324 RNA binding surface [nucleotide binding]; other site 869307003325 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 869307003326 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 869307003327 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 869307003328 substrate binding pocket [chemical binding]; other site 869307003329 chain length determination region; other site 869307003330 substrate-Mg2+ binding site; other site 869307003331 catalytic residues [active] 869307003332 aspartate-rich region 1; other site 869307003333 active site lid residues [active] 869307003334 aspartate-rich region 2; other site 869307003335 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 869307003336 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 869307003337 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 869307003338 generic binding surface II; other site 869307003339 generic binding surface I; other site 869307003340 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 869307003341 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 869307003342 Sugar specificity; other site 869307003343 Pyrimidine base specificity; other site 869307003344 ATP-binding site [chemical binding]; other site 869307003345 Enterocin A Immunity; Region: EntA_Immun; pfam08951 869307003346 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 869307003347 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 869307003348 RNA binding site [nucleotide binding]; other site 869307003349 active site 869307003350 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 869307003351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 869307003352 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 869307003354 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 869307003355 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 869307003356 active site 869307003357 catalytic site [active] 869307003358 DNA gyrase subunit A; Validated; Region: PRK05560 869307003359 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 869307003360 CAP-like domain; other site 869307003361 active site 869307003362 primary dimer interface [polypeptide binding]; other site 869307003363 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869307003364 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869307003365 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869307003366 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869307003367 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869307003368 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 869307003369 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 869307003370 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 869307003371 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869307003372 NAD binding site [chemical binding]; other site 869307003373 dimer interface [polypeptide binding]; other site 869307003374 substrate binding site [chemical binding]; other site 869307003375 Ion channel; Region: Ion_trans_2; pfam07885 869307003376 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 869307003377 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 869307003378 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 869307003379 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 869307003380 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 869307003381 putative active site [active] 869307003382 heme pocket [chemical binding]; other site 869307003383 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 869307003384 dimer interface [polypeptide binding]; other site 869307003385 phosphorylation site [posttranslational modification] 869307003386 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 869307003387 ATP binding site [chemical binding]; other site 869307003388 Mg2+ binding site [ion binding]; other site 869307003389 G-X-G motif; other site 869307003390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307003391 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 869307003392 active site 869307003393 phosphorylation site [posttranslational modification] 869307003394 intermolecular recognition site; other site 869307003395 dimerization interface [polypeptide binding]; other site 869307003396 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 869307003397 DNA binding site [nucleotide binding] 869307003398 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 869307003399 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 869307003400 minor groove reading motif; other site 869307003401 helix-hairpin-helix signature motif; other site 869307003402 substrate binding pocket [chemical binding]; other site 869307003403 active site 869307003404 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 869307003405 DNA binding and oxoG recognition site [nucleotide binding] 869307003406 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 869307003407 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 869307003408 Potassium binding sites [ion binding]; other site 869307003409 Cesium cation binding sites [ion binding]; other site 869307003410 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 869307003411 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 869307003412 Flavoprotein; Region: Flavoprotein; pfam02441 869307003413 Predicted membrane protein [Function unknown]; Region: COG4684 869307003414 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 869307003415 HTH domain; Region: HTH_11; pfam08279 869307003416 3H domain; Region: 3H; pfam02829 869307003417 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 869307003418 putative active site [active] 869307003419 nucleotide binding site [chemical binding]; other site 869307003420 nudix motif; other site 869307003421 putative metal binding site [ion binding]; other site 869307003422 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 869307003423 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307003424 Coenzyme A binding pocket [chemical binding]; other site 869307003425 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869307003426 excinuclease ABC subunit B; Provisional; Region: PRK05298 869307003427 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 869307003428 ATP binding site [chemical binding]; other site 869307003429 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 869307003430 nucleotide binding region [chemical binding]; other site 869307003431 ATP-binding site [chemical binding]; other site 869307003432 Ultra-violet resistance protein B; Region: UvrB; pfam12344 869307003433 UvrB/uvrC motif; Region: UVR; pfam02151 869307003434 CAAX protease self-immunity; Region: Abi; pfam02517 869307003435 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 869307003436 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307003437 substrate binding pocket [chemical binding]; other site 869307003438 membrane-bound complex binding site; other site 869307003439 hinge residues; other site 869307003440 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 869307003441 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307003442 substrate binding pocket [chemical binding]; other site 869307003443 membrane-bound complex binding site; other site 869307003444 hinge residues; other site 869307003445 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 869307003446 dimer interface [polypeptide binding]; other site 869307003447 conserved gate region; other site 869307003448 putative PBP binding loops; other site 869307003449 ABC-ATPase subunit interface; other site 869307003450 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869307003451 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869307003452 Walker A/P-loop; other site 869307003453 ATP binding site [chemical binding]; other site 869307003454 Q-loop/lid; other site 869307003455 ABC transporter signature motif; other site 869307003456 Walker B; other site 869307003457 D-loop; other site 869307003458 H-loop/switch region; other site 869307003459 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 869307003460 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 869307003461 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 869307003462 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 869307003463 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 869307003464 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 869307003465 P loop; other site 869307003466 GTP binding site [chemical binding]; other site 869307003467 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869307003468 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 869307003469 motif II; other site 869307003470 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869307003471 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869307003472 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 869307003473 active site 869307003474 motif I; other site 869307003475 motif II; other site 869307003476 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 869307003477 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 869307003478 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 869307003479 Walker A/P-loop; other site 869307003480 ATP binding site [chemical binding]; other site 869307003481 Q-loop/lid; other site 869307003482 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 869307003483 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 869307003484 ABC transporter signature motif; other site 869307003485 Walker B; other site 869307003486 D-loop; other site 869307003487 H-loop/switch region; other site 869307003488 ribonuclease III; Reviewed; Region: rnc; PRK00102 869307003489 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 869307003490 dimerization interface [polypeptide binding]; other site 869307003491 active site 869307003492 metal binding site [ion binding]; metal-binding site 869307003493 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 869307003494 dsRNA binding site [nucleotide binding]; other site 869307003495 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 869307003496 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 869307003497 active site 869307003498 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 869307003499 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 869307003500 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 869307003501 Walker A motif; other site 869307003502 ATP binding site [chemical binding]; other site 869307003503 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 869307003505 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 869307003506 substrate binding site [chemical binding]; other site 869307003507 Predicted membrane protein [Function unknown]; Region: COG3326 869307003510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 869307003511 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 869307003512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 869307003513 DNA topoisomerase I; Validated; Region: PRK05582 869307003514 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 869307003515 active site 869307003516 interdomain interaction site; other site 869307003517 putative metal-binding site [ion binding]; other site 869307003518 nucleotide binding site [chemical binding]; other site 869307003519 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 869307003520 domain I; other site 869307003521 DNA binding groove [nucleotide binding] 869307003522 phosphate binding site [ion binding]; other site 869307003523 domain II; other site 869307003524 domain III; other site 869307003525 nucleotide binding site [chemical binding]; other site 869307003526 catalytic site [active] 869307003527 domain IV; other site 869307003528 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 869307003529 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 869307003530 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 869307003531 Predicted membrane protein [Function unknown]; Region: COG1808 869307003532 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 869307003533 DNA protecting protein DprA; Region: dprA; TIGR00732 869307003534 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 869307003535 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 869307003536 active site 869307003537 metal-binding site 869307003538 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 869307003539 Phosphotransferase enzyme family; Region: APH; pfam01636 869307003540 active site 869307003541 substrate binding site [chemical binding]; other site 869307003542 ATP binding site [chemical binding]; other site 869307003543 dimer interface [polypeptide binding]; other site 869307003544 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 869307003545 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869307003546 putative NAD(P) binding site [chemical binding]; other site 869307003547 putative catalytic Zn binding site [ion binding]; other site 869307003548 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 869307003549 substrate binding site; other site 869307003550 dimer interface; other site 869307003551 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 869307003552 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 869307003553 LicD family; Region: LicD; cl01378 869307003554 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 869307003555 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 869307003556 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869307003557 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 869307003558 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 869307003559 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 869307003560 ATP-grasp domain; Region: ATP-grasp_4; cl17255 869307003561 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 869307003562 IMP binding site; other site 869307003563 dimer interface [polypeptide binding]; other site 869307003564 interdomain contacts; other site 869307003565 partial ornithine binding site; other site 869307003566 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 869307003567 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 869307003568 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 869307003569 catalytic site [active] 869307003570 subunit interface [polypeptide binding]; other site 869307003571 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 869307003572 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 869307003573 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 869307003574 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 869307003575 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307003576 active site 869307003577 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 869307003578 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 869307003579 minor groove reading motif; other site 869307003580 helix-hairpin-helix signature motif; other site 869307003581 substrate binding pocket [chemical binding]; other site 869307003582 active site 869307003583 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 869307003584 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869307003585 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307003586 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307003587 heat shock protein HtpX; Provisional; Region: PRK04897 869307003588 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 869307003589 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 869307003590 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 869307003591 S-adenosylmethionine binding site [chemical binding]; other site 869307003592 uracil transporter; Provisional; Region: PRK10720 869307003593 signal recognition particle protein; Provisional; Region: PRK10867 869307003594 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 869307003595 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 869307003596 P loop; other site 869307003597 GTP binding site [chemical binding]; other site 869307003598 Signal peptide binding domain; Region: SRP_SPB; pfam02978 869307003599 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 869307003600 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 869307003601 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 869307003602 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 869307003603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869307003604 Zn2+ binding site [ion binding]; other site 869307003605 Mg2+ binding site [ion binding]; other site 869307003606 sugar phosphate phosphatase; Provisional; Region: PRK10513 869307003607 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 869307003608 active site 869307003609 motif I; other site 869307003610 motif II; other site 869307003611 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 869307003612 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 869307003613 camphor resistance protein CrcB; Provisional; Region: PRK14229 869307003614 camphor resistance protein CrcB; Provisional; Region: PRK14221 869307003615 hypothetical protein; Provisional; Region: PRK07248 869307003616 flavodoxin; Validated; Region: PRK07308 869307003617 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 869307003618 DHH family; Region: DHH; pfam01368 869307003619 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 869307003622 glutamate dehydrogenase; Provisional; Region: PRK09414 869307003623 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 869307003624 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 869307003625 NAD(P) binding site [chemical binding]; other site 869307003630 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307003631 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869307003632 Walker A/P-loop; other site 869307003633 ATP binding site [chemical binding]; other site 869307003634 Q-loop/lid; other site 869307003635 ABC transporter signature motif; other site 869307003636 Walker B; other site 869307003637 D-loop; other site 869307003638 H-loop/switch region; other site 869307003642 CAAX protease self-immunity; Region: Abi; pfam02517 869307003643 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 869307003644 ArsC family; Region: ArsC; pfam03960 869307003645 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 869307003646 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 869307003647 core dimer interface [polypeptide binding]; other site 869307003648 L10 interface [polypeptide binding]; other site 869307003649 L11 interface [polypeptide binding]; other site 869307003650 putative EF-Tu interaction site [polypeptide binding]; other site 869307003651 putative EF-G interaction site [polypeptide binding]; other site 869307003652 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 869307003653 23S rRNA interface [nucleotide binding]; other site 869307003654 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 869307003655 chlorohydrolase; Validated; Region: PRK06687 869307003656 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 869307003657 active site 869307003658 putative substrate binding pocket [chemical binding]; other site 869307003659 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869307003660 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307003661 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869307003662 Walker A/P-loop; other site 869307003663 ATP binding site [chemical binding]; other site 869307003664 Q-loop/lid; other site 869307003665 ABC transporter signature motif; other site 869307003666 Walker B; other site 869307003667 D-loop; other site 869307003668 H-loop/switch region; other site 869307003669 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869307003670 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307003671 APC10-like DOC1 domains in E3 ubiquitin ligases that mediate substrate ubiquitination; Region: APC10-like; cl02148 869307003672 putative ligand binding site [chemical binding]; other site 869307003673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307003674 Walker A/P-loop; other site 869307003675 ATP binding site [chemical binding]; other site 869307003676 Q-loop/lid; other site 869307003677 ABC transporter signature motif; other site 869307003678 Walker B; other site 869307003679 D-loop; other site 869307003680 H-loop/switch region; other site 869307003681 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 869307003682 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 869307003683 SelR domain; Region: SelR; pfam01641 869307003684 homoserine kinase; Provisional; Region: PRK01212 869307003685 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869307003686 homoserine dehydrogenase; Provisional; Region: PRK06349 869307003687 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 869307003688 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 869307003689 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 869307003690 adaptor protein; Provisional; Region: PRK02315 869307003691 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 869307003692 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 869307003693 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 869307003694 active site 869307003695 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 869307003696 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 869307003697 putative ADP-binding pocket [chemical binding]; other site 869307003698 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 869307003699 Transcriptional regulator [Transcription]; Region: LytR; COG1316 869307003700 prephenate dehydratase; Provisional; Region: PRK11898 869307003701 Prephenate dehydratase; Region: PDT; pfam00800 869307003702 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 869307003703 putative L-Phe binding site [chemical binding]; other site 869307003704 shikimate kinase; Reviewed; Region: aroK; PRK00131 869307003705 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 869307003706 ADP binding site [chemical binding]; other site 869307003707 magnesium binding site [ion binding]; other site 869307003708 putative shikimate binding site; other site 869307003709 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 869307003710 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 869307003711 hinge; other site 869307003712 active site 869307003713 hypothetical protein; Provisional; Region: PRK13676 869307003714 prephenate dehydrogenase; Validated; Region: PRK06545 869307003715 prephenate dehydrogenase; Validated; Region: PRK08507 869307003716 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 869307003717 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 869307003718 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 869307003719 Tetramer interface [polypeptide binding]; other site 869307003720 active site 869307003721 FMN-binding site [chemical binding]; other site 869307003722 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 869307003723 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 869307003724 active site 869307003725 dimer interface [polypeptide binding]; other site 869307003726 metal binding site [ion binding]; metal-binding site 869307003727 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 869307003728 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 869307003729 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 869307003730 shikimate binding site; other site 869307003731 NAD(P) binding site [chemical binding]; other site 869307003732 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 869307003733 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 869307003734 active site 869307003735 catalytic residue [active] 869307003736 dimer interface [polypeptide binding]; other site 869307003737 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 869307003738 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 869307003739 putative RNA binding site [nucleotide binding]; other site 869307003740 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 869307003742 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 869307003743 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869307003744 Walker A/P-loop; other site 869307003745 ATP binding site [chemical binding]; other site 869307003746 Q-loop/lid; other site 869307003747 ABC transporter signature motif; other site 869307003748 Walker B; other site 869307003749 D-loop; other site 869307003750 H-loop/switch region; other site 869307003751 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 869307003752 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 869307003753 active site 869307003754 Na/Ca binding site [ion binding]; other site 869307003755 catalytic site [active] 869307003756 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 869307003757 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 869307003758 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 869307003759 motif 1; other site 869307003760 active site 869307003761 motif 2; other site 869307003762 motif 3; other site 869307003763 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 869307003764 DHHA1 domain; Region: DHHA1; pfam02272 869307003765 Uncharacterized conserved protein [Function unknown]; Region: COG4894 869307003766 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 869307003767 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 869307003768 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869307003769 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 869307003770 dimer interface [polypeptide binding]; other site 869307003771 conserved gate region; other site 869307003772 putative PBP binding loops; other site 869307003773 ABC-ATPase subunit interface; other site 869307003774 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 869307003775 dimer interface [polypeptide binding]; other site 869307003776 conserved gate region; other site 869307003777 putative PBP binding loops; other site 869307003778 ABC-ATPase subunit interface; other site 869307003779 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869307003780 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 869307003781 Walker A/P-loop; other site 869307003782 ATP binding site [chemical binding]; other site 869307003783 Q-loop/lid; other site 869307003784 ABC transporter signature motif; other site 869307003785 Walker B; other site 869307003786 D-loop; other site 869307003787 H-loop/switch region; other site 869307003788 TOBE domain; Region: TOBE_2; pfam08402 869307003789 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 869307003790 FAD binding domain; Region: FAD_binding_4; pfam01565 869307003791 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 869307003793 Alpha-acetolactate decarboxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AlsD; COG3527 869307003794 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 869307003795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307003796 DNA-binding site [nucleotide binding]; DNA binding site 869307003797 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 869307003798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307003799 homodimer interface [polypeptide binding]; other site 869307003800 catalytic residue [active] 869307003801 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 869307003802 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307003803 substrate binding pocket [chemical binding]; other site 869307003804 membrane-bound complex binding site; other site 869307003805 hinge residues; other site 869307003806 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 869307003807 PhoU domain; Region: PhoU; pfam01895 869307003808 PhoU domain; Region: PhoU; pfam01895 869307003809 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 869307003810 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869307003811 Walker A/P-loop; other site 869307003812 ATP binding site [chemical binding]; other site 869307003813 Q-loop/lid; other site 869307003814 ABC transporter signature motif; other site 869307003815 Walker B; other site 869307003816 D-loop; other site 869307003817 H-loop/switch region; other site 869307003818 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 869307003819 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869307003820 Walker A/P-loop; other site 869307003821 ATP binding site [chemical binding]; other site 869307003822 Q-loop/lid; other site 869307003823 ABC transporter signature motif; other site 869307003824 Walker B; other site 869307003825 D-loop; other site 869307003826 H-loop/switch region; other site 869307003827 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 869307003828 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 869307003829 dimer interface [polypeptide binding]; other site 869307003830 conserved gate region; other site 869307003831 putative PBP binding loops; other site 869307003832 ABC-ATPase subunit interface; other site 869307003833 sulfate transport protein; Provisional; Region: cysT; CHL00187 869307003834 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 869307003835 dimer interface [polypeptide binding]; other site 869307003836 conserved gate region; other site 869307003837 putative PBP binding loops; other site 869307003838 ABC-ATPase subunit interface; other site 869307003839 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 869307003840 phosphate binding protein; Region: ptsS_2; TIGR02136 869307003841 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 869307003842 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 869307003843 S-adenosylmethionine binding site [chemical binding]; other site 869307003844 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 869307003845 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 869307003846 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 869307003847 active site 869307003848 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 869307003849 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 869307003850 ArsC family; Region: ArsC; pfam03960 869307003851 putative catalytic residues [active] 869307003852 thiol/disulfide switch; other site 869307003853 Predicted membrane protein [Function unknown]; Region: COG4478 869307003854 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 869307003855 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 869307003856 active site 869307003857 motif I; other site 869307003858 motif II; other site 869307003859 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 869307003860 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 869307003861 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 869307003862 active site 869307003863 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 869307003864 active site 869307003865 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 869307003866 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 869307003867 FeS/SAM binding site; other site 869307003868 HemN C-terminal domain; Region: HemN_C; pfam06969 869307003869 YtxH-like protein; Region: YtxH; pfam12732 869307003870 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 869307003871 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 869307003872 HPr kinase/phosphorylase; Provisional; Region: PRK05428 869307003873 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 869307003874 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 869307003875 Hpr binding site; other site 869307003876 active site 869307003877 homohexamer subunit interaction site [polypeptide binding]; other site 869307003878 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 869307003879 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 869307003880 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 869307003881 active site 869307003882 trimer interface [polypeptide binding]; other site 869307003883 allosteric site; other site 869307003884 active site lid [active] 869307003885 hexamer (dimer of trimers) interface [polypeptide binding]; other site 869307003886 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 869307003887 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 869307003888 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 869307003889 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307003890 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869307003891 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 869307003892 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 869307003893 homodimer interface [polypeptide binding]; other site 869307003894 NAD binding pocket [chemical binding]; other site 869307003895 ATP binding pocket [chemical binding]; other site 869307003896 Mg binding site [ion binding]; other site 869307003897 active-site loop [active] 869307003898 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 869307003899 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 869307003900 active site 869307003901 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 869307003902 non-specific DNA binding site [nucleotide binding]; other site 869307003903 salt bridge; other site 869307003904 sequence-specific DNA binding site [nucleotide binding]; other site 869307003907 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 869307003908 CHY zinc finger; Region: zf-CHY; pfam05495 869307003909 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 869307003910 Peptidase family U32; Region: Peptidase_U32; pfam01136 869307003912 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 869307003913 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 869307003914 S-adenosylmethionine binding site [chemical binding]; other site 869307003915 Helix-turn-helix domain; Region: HTH_18; pfam12833 869307003916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869307003917 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869307003918 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307003919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307003920 Walker A/P-loop; other site 869307003921 ATP binding site [chemical binding]; other site 869307003922 Q-loop/lid; other site 869307003923 ABC transporter signature motif; other site 869307003924 Walker B; other site 869307003925 D-loop; other site 869307003926 H-loop/switch region; other site 869307003927 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869307003928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307003929 Walker A/P-loop; other site 869307003930 ATP binding site [chemical binding]; other site 869307003931 Q-loop/lid; other site 869307003932 ABC transporter signature motif; other site 869307003933 Walker B; other site 869307003934 D-loop; other site 869307003935 H-loop/switch region; other site 869307003936 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 869307003937 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869307003938 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869307003939 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869307003940 Walker A/P-loop; other site 869307003941 ATP binding site [chemical binding]; other site 869307003942 Q-loop/lid; other site 869307003943 ABC transporter signature motif; other site 869307003944 Walker B; other site 869307003945 D-loop; other site 869307003946 H-loop/switch region; other site 869307003947 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307003948 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 869307003949 Walker A/P-loop; other site 869307003950 ATP binding site [chemical binding]; other site 869307003951 Q-loop/lid; other site 869307003952 ABC transporter signature motif; other site 869307003953 Walker B; other site 869307003954 D-loop; other site 869307003955 H-loop/switch region; other site 869307003958 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 869307003959 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 869307003961 GMP synthase; Reviewed; Region: guaA; PRK00074 869307003962 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 869307003963 AMP/PPi binding site [chemical binding]; other site 869307003964 candidate oxyanion hole; other site 869307003965 catalytic triad [active] 869307003966 potential glutamine specificity residues [chemical binding]; other site 869307003967 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 869307003968 ATP Binding subdomain [chemical binding]; other site 869307003969 Dimerization subdomain; other site 869307003970 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869307003971 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307003972 DNA-binding site [nucleotide binding]; DNA binding site 869307003973 UTRA domain; Region: UTRA; pfam07702 869307003974 EamA-like transporter family; Region: EamA; pfam00892 869307003975 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 869307003976 Beta-lactamase; Region: Beta-lactamase; pfam00144 869307003977 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 869307003978 active site 869307003979 catalytic triad [active] 869307003980 oxyanion hole [active] 869307003981 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 869307003982 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 869307003983 active site 869307003984 motif I; other site 869307003985 motif II; other site 869307003986 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 869307003988 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 869307003989 active site 869307003990 catalytic residues [active] 869307003991 metal binding site [ion binding]; metal-binding site 869307003992 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 869307003993 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 869307003994 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 869307003995 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 869307003996 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869307003997 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869307003998 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 869307003999 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869307004000 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 869307004001 Walker A/P-loop; other site 869307004002 ATP binding site [chemical binding]; other site 869307004003 Q-loop/lid; other site 869307004004 ABC transporter signature motif; other site 869307004005 Walker B; other site 869307004006 D-loop; other site 869307004007 H-loop/switch region; other site 869307004008 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 869307004009 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 869307004010 ABC-ATPase subunit interface; other site 869307004011 putative PBP binding loops; other site 869307004012 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 869307004013 putative ArsC-like catalytic residues; other site 869307004014 putative TRX-like catalytic residues [active] 869307004015 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 869307004016 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 869307004017 DNA binding site [nucleotide binding] 869307004018 active site 869307004019 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 869307004020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 869307004021 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 869307004022 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 869307004023 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 869307004024 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 869307004025 predicted active site [active] 869307004026 catalytic triad [active] 869307004027 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 869307004028 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 869307004029 active site 869307004030 multimer interface [polypeptide binding]; other site 869307004031 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 869307004032 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869307004033 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869307004034 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 869307004035 ApbE family; Region: ApbE; pfam02424 869307004036 Predicted flavoprotein [General function prediction only]; Region: COG0431 869307004037 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 869307004039 hypothetical protein; Provisional; Region: PRK02539 869307004040 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 869307004041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 869307004042 DALR anticodon binding domain; Region: DALR_1; pfam05746 869307004043 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 869307004044 dimer interface [polypeptide binding]; other site 869307004045 motif 1; other site 869307004046 active site 869307004047 motif 2; other site 869307004048 motif 3; other site 869307004049 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 869307004050 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 869307004051 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 869307004052 active site 869307004053 catalytic tetrad [active] 869307004054 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 869307004055 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 869307004056 NodB motif; other site 869307004057 active site 869307004058 catalytic site [active] 869307004059 Zn binding site [ion binding]; other site 869307004060 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 869307004061 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 869307004062 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869307004063 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 869307004064 DEAD-like helicases superfamily; Region: DEXDc; smart00487 869307004065 ATP binding site [chemical binding]; other site 869307004066 putative Mg++ binding site [ion binding]; other site 869307004067 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 869307004068 nucleotide binding region [chemical binding]; other site 869307004069 ATP-binding site [chemical binding]; other site 869307004071 elongation factor Tu; Reviewed; Region: PRK00049 869307004072 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 869307004073 G1 box; other site 869307004074 GEF interaction site [polypeptide binding]; other site 869307004075 GTP/Mg2+ binding site [chemical binding]; other site 869307004076 Switch I region; other site 869307004077 G2 box; other site 869307004078 G3 box; other site 869307004079 Switch II region; other site 869307004080 G4 box; other site 869307004081 G5 box; other site 869307004082 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 869307004083 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 869307004084 Antibiotic Binding Site [chemical binding]; other site 869307004085 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 869307004086 amphipathic channel; other site 869307004087 Asn-Pro-Ala signature motifs; other site 869307004090 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 869307004091 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 869307004092 active site 869307004093 substrate binding site [chemical binding]; other site 869307004094 metal binding site [ion binding]; metal-binding site 869307004095 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 869307004096 catalytic residues [active] 869307004097 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 869307004098 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 869307004099 substrate binding pocket [chemical binding]; other site 869307004100 membrane-bound complex binding site; other site 869307004101 hinge residues; other site 869307004102 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307004103 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307004104 Walker A/P-loop; other site 869307004105 ATP binding site [chemical binding]; other site 869307004106 Q-loop/lid; other site 869307004107 ABC transporter signature motif; other site 869307004108 Walker B; other site 869307004109 D-loop; other site 869307004110 H-loop/switch region; other site 869307004111 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 869307004112 dimer interface [polypeptide binding]; other site 869307004113 conserved gate region; other site 869307004114 putative PBP binding loops; other site 869307004115 ABC-ATPase subunit interface; other site 869307004116 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 869307004117 TPR motif; other site 869307004118 binding surface 869307004119 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 869307004120 binding surface 869307004121 TPR motif; other site 869307004122 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 869307004123 Domain of unknown function DUF20; Region: UPF0118; pfam01594 869307004124 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 869307004125 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 869307004126 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 869307004127 gamma subunit interface [polypeptide binding]; other site 869307004128 epsilon subunit interface [polypeptide binding]; other site 869307004129 LBP interface [polypeptide binding]; other site 869307004130 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 869307004131 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 869307004132 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 869307004133 alpha subunit interaction interface [polypeptide binding]; other site 869307004134 Walker A motif; other site 869307004135 ATP binding site [chemical binding]; other site 869307004136 Walker B motif; other site 869307004137 inhibitor binding site; inhibition site 869307004138 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 869307004139 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 869307004140 core domain interface [polypeptide binding]; other site 869307004141 delta subunit interface [polypeptide binding]; other site 869307004142 epsilon subunit interface [polypeptide binding]; other site 869307004143 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 869307004144 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 869307004145 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 869307004146 beta subunit interaction interface [polypeptide binding]; other site 869307004147 Walker A motif; other site 869307004148 ATP binding site [chemical binding]; other site 869307004149 Walker B motif; other site 869307004150 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 869307004151 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 869307004152 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 869307004153 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 869307004154 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 869307004155 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 869307004156 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 869307004157 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 869307004159 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307004160 Coenzyme A binding pocket [chemical binding]; other site 869307004161 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 869307004162 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 869307004163 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 869307004164 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 869307004165 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 869307004166 dimerization interface [polypeptide binding]; other site 869307004167 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 869307004168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307004169 Coenzyme A binding pocket [chemical binding]; other site 869307004170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307004171 Coenzyme A binding pocket [chemical binding]; other site 869307004172 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 869307004173 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869307004174 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869307004175 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869307004176 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 869307004177 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 869307004178 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 869307004179 ATP binding site [chemical binding]; other site 869307004180 putative Mg++ binding site [ion binding]; other site 869307004181 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 869307004182 nucleotide binding region [chemical binding]; other site 869307004183 ATP-binding site [chemical binding]; other site 869307004184 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 869307004185 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 869307004186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307004187 homodimer interface [polypeptide binding]; other site 869307004188 catalytic residue [active] 869307004189 cystathionine gamma-synthase; Reviewed; Region: PRK07269 869307004190 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 869307004191 homodimer interface [polypeptide binding]; other site 869307004192 substrate-cofactor binding pocket; other site 869307004193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307004194 catalytic residue [active] 869307004196 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 869307004197 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 869307004198 peptide binding site [polypeptide binding]; other site 869307004199 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 869307004200 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 869307004201 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 869307004202 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869307004203 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869307004204 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869307004205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 869307004206 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 869307004207 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 869307004208 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 869307004209 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 869307004210 DHH family; Region: DHH; pfam01368 869307004211 DHHA2 domain; Region: DHHA2; pfam02833 869307004212 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 869307004213 GIY-YIG motif/motif A; other site 869307004214 putative active site [active] 869307004215 putative metal binding site [ion binding]; other site 869307004216 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 869307004217 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 869307004218 S-adenosylmethionine binding site [chemical binding]; other site 869307004219 hypothetical protein; Provisional; Region: PRK07252 869307004220 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 869307004221 RNA binding site [nucleotide binding]; other site 869307004222 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 869307004223 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869307004224 active site 869307004225 motif I; other site 869307004226 motif II; other site 869307004227 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 869307004228 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 869307004229 active site 869307004230 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 869307004231 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 869307004232 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 869307004233 dimer interface [polypeptide binding]; other site 869307004234 ssDNA binding site [nucleotide binding]; other site 869307004235 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869307004236 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 869307004237 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 869307004238 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 869307004239 putative dimer interface [polypeptide binding]; other site 869307004240 putative anticodon binding site; other site 869307004241 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 869307004242 homodimer interface [polypeptide binding]; other site 869307004243 motif 1; other site 869307004244 motif 2; other site 869307004245 active site 869307004246 motif 3; other site 869307004247 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 869307004248 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 869307004249 aspartate aminotransferase; Provisional; Region: PRK05764 869307004250 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 869307004251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307004252 homodimer interface [polypeptide binding]; other site 869307004253 catalytic residue [active] 869307004254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 869307004255 Predicted flavoprotein [General function prediction only]; Region: COG0431 869307004256 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 869307004257 hypothetical protein; Validated; Region: PRK02101 869307004258 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 869307004259 active site 869307004260 catalytic residues [active] 869307004261 metal binding site [ion binding]; metal-binding site 869307004262 putative S-transferase; Provisional; Region: PRK11752 869307004263 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 869307004264 C-terminal domain interface [polypeptide binding]; other site 869307004265 GSH binding site (G-site) [chemical binding]; other site 869307004266 dimer interface [polypeptide binding]; other site 869307004267 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 869307004268 N-terminal domain interface [polypeptide binding]; other site 869307004269 dimer interface [polypeptide binding]; other site 869307004270 substrate binding pocket (H-site) [chemical binding]; other site 869307004271 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 869307004272 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 869307004273 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869307004274 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 869307004275 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 869307004276 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 869307004277 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 869307004278 Cation efflux family; Region: Cation_efflux; pfam01545 869307004279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 869307004280 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 869307004281 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307004282 Walker A/P-loop; other site 869307004283 ATP binding site [chemical binding]; other site 869307004284 Q-loop/lid; other site 869307004285 ABC transporter signature motif; other site 869307004286 Walker B; other site 869307004287 D-loop; other site 869307004288 H-loop/switch region; other site 869307004289 ABC transporter; Region: ABC_tran_2; pfam12848 869307004290 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307004291 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 869307004292 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 869307004293 active site 869307004294 NTP binding site [chemical binding]; other site 869307004295 metal binding triad [ion binding]; metal-binding site 869307004296 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 869307004297 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 869307004298 dihydrodipicolinate reductase; Provisional; Region: PRK00048 869307004299 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 869307004300 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 869307004301 EDD domain protein, DegV family; Region: DegV; TIGR00762 869307004302 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 869307004303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4835 869307004304 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 869307004305 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 869307004306 active site 869307004307 substrate binding site [chemical binding]; other site 869307004308 metal binding site [ion binding]; metal-binding site 869307004309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 869307004310 YbbR-like protein; Region: YbbR; pfam07949 869307004311 Uncharacterized conserved protein [Function unknown]; Region: COG1624 869307004312 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 869307004313 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 869307004314 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 869307004315 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869307004316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 869307004317 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 869307004318 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 869307004319 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 869307004320 dimer interface [polypeptide binding]; other site 869307004321 phosphate binding site [ion binding]; other site 869307004322 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 869307004323 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 869307004324 homotrimer interaction site [polypeptide binding]; other site 869307004325 putative active site [active] 869307004326 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 869307004327 G1 box; other site 869307004328 GTP/Mg2+ binding site [chemical binding]; other site 869307004329 Switch I region; other site 869307004330 G2 box; other site 869307004331 G3 box; other site 869307004332 Switch II region; other site 869307004333 G4 box; other site 869307004334 G5 box; other site 869307004335 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 869307004336 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 869307004337 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 869307004338 Walker A motif; other site 869307004339 ATP binding site [chemical binding]; other site 869307004340 Walker B motif; other site 869307004341 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 869307004342 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 869307004343 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 869307004344 folate binding site [chemical binding]; other site 869307004345 NADP+ binding site [chemical binding]; other site 869307004346 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 869307004347 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 869307004348 dimerization interface [polypeptide binding]; other site 869307004349 DPS ferroxidase diiron center [ion binding]; other site 869307004350 ion pore; other site 869307004352 triosephosphate isomerase; Provisional; Region: PRK14567 869307004353 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 869307004354 substrate binding site [chemical binding]; other site 869307004355 dimer interface [polypeptide binding]; other site 869307004356 catalytic triad [active] 869307004357 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 869307004358 DnaD and phage-associated domain; Region: DnaD_dom; TIGR01446 869307004359 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 869307004360 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 869307004361 proposed active site lysine [active] 869307004362 conserved cys residue [active] 869307004363 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307004364 active site 869307004365 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869307004366 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 869307004367 S-adenosylmethionine binding site [chemical binding]; other site 869307004368 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 869307004369 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 869307004370 Walker A/P-loop; other site 869307004371 ATP binding site [chemical binding]; other site 869307004372 Q-loop/lid; other site 869307004373 ABC transporter signature motif; other site 869307004374 Walker B; other site 869307004375 D-loop; other site 869307004376 H-loop/switch region; other site 869307004377 TOBE domain; Region: TOBE_2; pfam08402 869307004378 Isochorismatase family; Region: Isochorismatase; pfam00857 869307004379 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 869307004380 catalytic triad [active] 869307004381 conserved cis-peptide bond; other site 869307004382 Pleiotropic transcriptional repressor [Transcription]; Region: CodY; COG4465 869307004383 CodY GAF-like domain; Region: CodY; pfam06018 869307004384 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 869307004385 putative DNA binding site [nucleotide binding]; other site 869307004386 putative Zn2+ binding site [ion binding]; other site 869307004387 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 869307004388 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 869307004389 ATP binding site [chemical binding]; other site 869307004390 Mg++ binding site [ion binding]; other site 869307004391 motif III; other site 869307004392 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 869307004393 nucleotide binding region [chemical binding]; other site 869307004394 ATP-binding site [chemical binding]; other site 869307004395 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 869307004396 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 869307004397 putative substrate translocation pore; other site 869307004398 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 869307004399 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 869307004400 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 869307004401 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 869307004402 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 869307004403 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869307004404 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 869307004405 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 869307004406 catalytic triad [active] 869307004407 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 869307004408 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 869307004409 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 869307004410 active site 869307004411 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869307004414 Predicted membrane protein [Function unknown]; Region: COG4720 869307004415 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 869307004416 dimer interface [polypeptide binding]; other site 869307004417 substrate binding site [chemical binding]; other site 869307004418 ATP binding site [chemical binding]; other site 869307004419 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 869307004420 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 869307004421 dimerization interface 3.5A [polypeptide binding]; other site 869307004422 active site 869307004423 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 869307004424 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 869307004425 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 869307004426 PhnA protein; Region: PhnA; pfam03831 869307004427 cytidylate kinase; Provisional; Region: cmk; PRK00023 869307004428 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 869307004429 CMP-binding site; other site 869307004430 The sites determining sugar specificity; other site 869307004431 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 869307004432 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 869307004433 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 869307004434 Ligand binding site; other site 869307004435 Putative Catalytic site; other site 869307004436 DXD motif; other site 869307004437 UDP-glucose 4-epimerase; Region: PLN02240 869307004438 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 869307004439 NAD binding site [chemical binding]; other site 869307004440 homodimer interface [polypeptide binding]; other site 869307004441 active site 869307004442 substrate binding site [chemical binding]; other site 869307004443 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 869307004444 Uncharacterized conserved protein [Function unknown]; Region: COG0327 869307004445 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 869307004446 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 869307004447 Family of unknown function (DUF633); Region: DUF633; pfam04816 869307004449 putative transposase OrfB; Reviewed; Region: PHA02517 869307004450 HTH-like domain; Region: HTH_21; pfam13276 869307004451 Integrase core domain; Region: rve; pfam00665 869307004452 Integrase core domain; Region: rve_2; pfam13333 869307004454 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 869307004455 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 869307004456 TPP-binding site [chemical binding]; other site 869307004457 dimer interface [polypeptide binding]; other site 869307004458 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 869307004459 PYR/PP interface [polypeptide binding]; other site 869307004460 dimer interface [polypeptide binding]; other site 869307004461 TPP binding site [chemical binding]; other site 869307004462 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869307004463 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 869307004464 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 869307004465 substrate binding site [chemical binding]; other site 869307004466 hexamer interface [polypeptide binding]; other site 869307004467 metal binding site [ion binding]; metal-binding site 869307004468 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 869307004469 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869307004470 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 869307004471 active site 869307004472 P-loop; other site 869307004473 phosphorylation site [posttranslational modification] 869307004474 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 869307004475 active site 869307004476 phosphorylation site [posttranslational modification] 869307004477 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 869307004478 active site 869307004479 phosphorylation site [posttranslational modification] 869307004480 HTH domain; Region: HTH_11; pfam08279 869307004481 Mga helix-turn-helix domain; Region: Mga; pfam05043 869307004482 PRD domain; Region: PRD; pfam00874 869307004483 PRD domain; Region: PRD; pfam00874 869307004484 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 869307004485 active site 869307004486 P-loop; other site 869307004487 phosphorylation site [posttranslational modification] 869307004488 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 869307004489 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869307004490 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 869307004491 motif II; other site 869307004492 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 869307004493 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 869307004494 putative acyl-acceptor binding pocket; other site 869307004495 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 869307004496 Cadmium resistance transporter; Region: Cad; pfam03596 869307004497 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 869307004498 16S/18S rRNA binding site [nucleotide binding]; other site 869307004499 S13e-L30e interaction site [polypeptide binding]; other site 869307004500 25S rRNA binding site [nucleotide binding]; other site 869307004501 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 869307004502 NADH(P)-binding; Region: NAD_binding_10; pfam13460 869307004503 NAD binding site [chemical binding]; other site 869307004504 substrate binding site [chemical binding]; other site 869307004505 putative active site [active] 869307004506 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 869307004507 metal binding site [ion binding]; metal-binding site 869307004508 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 869307004509 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 869307004510 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 869307004511 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 869307004512 active site 869307004513 dimer interface [polypeptide binding]; other site 869307004514 motif 1; other site 869307004515 motif 2; other site 869307004516 motif 3; other site 869307004517 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 869307004518 anticodon binding site; other site 869307004519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869307004520 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 869307004521 ATP binding site [chemical binding]; other site 869307004522 Mg2+ binding site [ion binding]; other site 869307004523 G-X-G motif; other site 869307004524 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307004525 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 869307004526 active site 869307004527 phosphorylation site [posttranslational modification] 869307004528 intermolecular recognition site; other site 869307004529 dimerization interface [polypeptide binding]; other site 869307004530 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 869307004531 DNA binding site [nucleotide binding] 869307004532 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 869307004533 nucleophilic elbow; other site 869307004534 catalytic triad; other site 869307004535 Predicted transcriptional regulator [Transcription]; Region: COG1959 869307004536 Transcriptional regulator; Region: Rrf2; pfam02082 869307004538 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 869307004539 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 869307004540 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 869307004541 FeoA domain; Region: FeoA; pfam04023 869307004543 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 869307004544 putative active site [active] 869307004545 dimerization interface [polypeptide binding]; other site 869307004546 putative tRNAtyr binding site [nucleotide binding]; other site 869307004547 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 869307004548 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869307004549 Zn2+ binding site [ion binding]; other site 869307004550 Mg2+ binding site [ion binding]; other site 869307004551 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 869307004552 synthetase active site [active] 869307004553 NTP binding site [chemical binding]; other site 869307004554 metal binding site [ion binding]; metal-binding site 869307004555 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 869307004556 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 869307004557 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 869307004558 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 869307004559 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 869307004560 active site 869307004561 Zn binding site [ion binding]; other site 869307004562 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 869307004563 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 869307004564 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 869307004565 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 869307004566 ABC-ATPase subunit interface; other site 869307004567 dimer interface [polypeptide binding]; other site 869307004568 putative PBP binding regions; other site 869307004569 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869307004570 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 869307004571 metal binding site [ion binding]; metal-binding site 869307004572 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 869307004573 dimer interface [polypeptide binding]; other site 869307004574 catalytic triad [active] 869307004575 peroxidatic and resolving cysteines [active] 869307004577 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307004578 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869307004579 Walker A/P-loop; other site 869307004580 ATP binding site [chemical binding]; other site 869307004581 Q-loop/lid; other site 869307004582 ABC transporter signature motif; other site 869307004583 Walker B; other site 869307004584 D-loop; other site 869307004585 H-loop/switch region; other site 869307004587 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 869307004588 catalytic core [active] 869307004589 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 869307004590 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 869307004591 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 869307004592 active site 869307004593 HIGH motif; other site 869307004594 nucleotide binding site [chemical binding]; other site 869307004595 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 869307004596 active site 869307004597 KMSKS motif; other site 869307004598 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 869307004599 tRNA binding surface [nucleotide binding]; other site 869307004600 anticodon binding site; other site 869307004601 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 869307004603 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 869307004604 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 869307004605 RNA binding surface [nucleotide binding]; other site 869307004606 YGGT family; Region: YGGT; pfam02325 869307004607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 869307004608 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 869307004609 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869307004610 catalytic residue [active] 869307004611 cell division protein FtsZ; Validated; Region: PRK09330 869307004612 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 869307004613 nucleotide binding site [chemical binding]; other site 869307004614 SulA interaction site; other site 869307004615 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 869307004616 Cell division protein FtsA; Region: FtsA; smart00842 869307004617 Cell division protein FtsA; Region: FtsA; pfam14450 869307004618 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 869307004619 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 869307004620 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 869307004621 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 869307004622 nudix motif; other site 869307004623 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 869307004624 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 869307004625 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 869307004626 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 869307004627 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 869307004628 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 869307004629 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 869307004630 recombination protein RecR; Reviewed; Region: recR; PRK00076 869307004631 RecR protein; Region: RecR; pfam02132 869307004632 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 869307004633 putative active site [active] 869307004634 putative metal-binding site [ion binding]; other site 869307004635 tetramer interface [polypeptide binding]; other site 869307004636 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 869307004637 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 869307004638 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 869307004639 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 869307004640 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 869307004641 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 869307004642 putative active site [active] 869307004643 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869307004644 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869307004645 nucleotide binding site [chemical binding]; other site 869307004646 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 869307004647 Class I aldolases; Region: Aldolase_Class_I; cl17187 869307004648 catalytic residue [active] 869307004649 Protein of unknown function, DUF624; Region: DUF624; pfam04854 869307004650 Domain of unknown function (DUF386); Region: DUF386; pfam04074 869307004651 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869307004652 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 869307004653 dimer interface [polypeptide binding]; other site 869307004654 conserved gate region; other site 869307004655 putative PBP binding loops; other site 869307004656 ABC-ATPase subunit interface; other site 869307004657 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869307004658 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 869307004659 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 869307004660 putative PBP binding loops; other site 869307004661 dimer interface [polypeptide binding]; other site 869307004662 ABC-ATPase subunit interface; other site 869307004663 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869307004664 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869307004665 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 869307004666 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869307004667 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 869307004668 active site turn [active] 869307004669 phosphorylation site [posttranslational modification] 869307004670 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 869307004671 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 869307004672 putative active site cavity [active] 869307004673 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 869307004674 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 869307004675 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 869307004676 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 869307004677 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 869307004678 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 869307004679 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 869307004680 Asp-box motif; other site 869307004681 catalytic site [active] 869307004682 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869307004683 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 869307004684 dimer interface [polypeptide binding]; other site 869307004685 conserved gate region; other site 869307004686 putative PBP binding loops; other site 869307004687 ABC-ATPase subunit interface; other site 869307004688 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 869307004689 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 869307004690 dimer interface [polypeptide binding]; other site 869307004691 conserved gate region; other site 869307004692 putative PBP binding loops; other site 869307004693 ABC-ATPase subunit interface; other site 869307004694 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869307004695 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869307004696 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 869307004697 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869307004698 Sialidase, N-terminal domain; Region: Sialidase; pfam02973 869307004699 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 869307004700 Asp-box motif; other site 869307004701 catalytic site [active] 869307004702 Procyclic acidic repetitive protein (PARP); Region: Trypan_PARP; pfam05887 869307004703 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 869307004704 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 869307004705 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 869307004706 ssDNA binding site; other site 869307004707 generic binding surface II; other site 869307004708 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 869307004709 ATP binding site [chemical binding]; other site 869307004710 putative Mg++ binding site [ion binding]; other site 869307004711 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 869307004712 nucleotide binding region [chemical binding]; other site 869307004713 ATP-binding site [chemical binding]; other site 869307004714 alanine racemase; Reviewed; Region: alr; PRK00053 869307004715 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 869307004716 active site 869307004717 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869307004718 dimer interface [polypeptide binding]; other site 869307004719 substrate binding site [chemical binding]; other site 869307004720 catalytic residues [active] 869307004721 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 869307004722 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 869307004723 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 869307004724 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG0722 869307004725 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 869307004726 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 869307004727 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 869307004728 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 869307004729 nucleotide binding region [chemical binding]; other site 869307004730 ATP-binding site [chemical binding]; other site 869307004731 SEC-C motif; Region: SEC-C; pfam02810 869307004732 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 869307004733 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869307004734 Walker A/P-loop; other site 869307004735 ATP binding site [chemical binding]; other site 869307004736 Q-loop/lid; other site 869307004737 ABC transporter signature motif; other site 869307004738 Walker B; other site 869307004739 D-loop; other site 869307004740 H-loop/switch region; other site 869307004741 GTP-binding protein Der; Reviewed; Region: PRK00093 869307004742 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 869307004743 G1 box; other site 869307004744 GTP/Mg2+ binding site [chemical binding]; other site 869307004745 Switch I region; other site 869307004746 G2 box; other site 869307004747 Switch II region; other site 869307004748 G3 box; other site 869307004749 G4 box; other site 869307004750 G5 box; other site 869307004751 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 869307004752 G1 box; other site 869307004753 GTP/Mg2+ binding site [chemical binding]; other site 869307004754 Switch I region; other site 869307004755 G2 box; other site 869307004756 G3 box; other site 869307004757 Switch II region; other site 869307004758 G4 box; other site 869307004759 G5 box; other site 869307004760 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 869307004761 dimer interface [polypeptide binding]; other site 869307004762 FMN binding site [chemical binding]; other site 869307004763 NADPH bind site [chemical binding]; other site 869307004764 primosomal protein DnaI; Reviewed; Region: PRK08939 869307004765 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 869307004766 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 869307004767 Walker A motif; other site 869307004768 ATP binding site [chemical binding]; other site 869307004769 Walker B motif; other site 869307004770 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 869307004771 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 869307004772 ATP cone domain; Region: ATP-cone; pfam03477 869307004773 Predicted transcriptional regulators [Transcription]; Region: COG1725 869307004774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307004775 DNA-binding site [nucleotide binding]; DNA binding site 869307004776 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 869307004777 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869307004778 Walker A/P-loop; other site 869307004779 ATP binding site [chemical binding]; other site 869307004780 Q-loop/lid; other site 869307004781 ABC transporter signature motif; other site 869307004782 Walker B; other site 869307004783 D-loop; other site 869307004784 H-loop/switch region; other site 869307004785 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 869307004786 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 869307004787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307004788 Walker A/P-loop; other site 869307004789 ATP binding site [chemical binding]; other site 869307004790 Q-loop/lid; other site 869307004791 ABC transporter signature motif; other site 869307004792 Walker B; other site 869307004793 D-loop; other site 869307004794 H-loop/switch region; other site 869307004795 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 869307004796 Uncharacterized conserved protein [Function unknown]; Region: COG0398 869307004797 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 869307004798 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869307004799 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869307004800 nucleotide binding site [chemical binding]; other site 869307004801 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 869307004802 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 869307004803 active site turn [active] 869307004804 phosphorylation site [posttranslational modification] 869307004805 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869307004806 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 869307004807 HPr interaction site; other site 869307004808 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869307004809 active site 869307004810 phosphorylation site [posttranslational modification] 869307004811 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 869307004812 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 869307004813 substrate binding [chemical binding]; other site 869307004814 active site 869307004815 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 869307004816 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869307004817 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869307004818 DNA binding site [nucleotide binding] 869307004819 domain linker motif; other site 869307004820 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 869307004821 dimerization interface [polypeptide binding]; other site 869307004822 ligand binding site [chemical binding]; other site 869307004823 sodium binding site [ion binding]; other site 869307004824 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 869307004825 homodimer interface [polypeptide binding]; other site 869307004826 catalytic residues [active] 869307004827 NAD binding site [chemical binding]; other site 869307004828 substrate binding pocket [chemical binding]; other site 869307004829 flexible flap; other site 869307004830 "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 869307004831 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 869307004832 dimer interface [polypeptide binding]; other site 869307004833 active site 869307004834 IS1381 orfs A and B appear to have fused into the same reading frame due to a small deletion 869307004835 Uncharacterized conserved protein [Function unknown]; Region: COG3610 869307004836 Uncharacterized conserved protein [Function unknown]; Region: COG2966 869307004837 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 869307004838 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 869307004839 Catalytic domain of Protein Kinases; Region: PKc; cd00180 869307004840 active site 869307004841 ATP binding site [chemical binding]; other site 869307004842 substrate binding site [chemical binding]; other site 869307004843 activation loop (A-loop); other site 869307004844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 869307004845 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 869307004846 PASTA domain; Region: PASTA; smart00740 869307004847 PASTA domain; Region: PASTA; smart00740 869307004848 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 869307004849 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 869307004850 active site 869307004851 16S rRNA methyltransferase B; Provisional; Region: PRK14902 869307004852 NusB family; Region: NusB; pfam01029 869307004853 putative RNA binding site [nucleotide binding]; other site 869307004854 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 869307004855 S-adenosylmethionine binding site [chemical binding]; other site 869307004856 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 869307004857 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 869307004858 putative active site [active] 869307004859 substrate binding site [chemical binding]; other site 869307004860 putative cosubstrate binding site; other site 869307004861 catalytic site [active] 869307004862 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 869307004863 substrate binding site [chemical binding]; other site 869307004864 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 869307004865 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 869307004866 ATP binding site [chemical binding]; other site 869307004867 putative Mg++ binding site [ion binding]; other site 869307004868 helicase superfamily c-terminal domain; Region: HELICc; smart00490 869307004869 ATP-binding site [chemical binding]; other site 869307004870 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 869307004871 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 869307004872 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 869307004873 catalytic site [active] 869307004874 G-X2-G-X-G-K; other site 869307004875 hypothetical protein; Provisional; Region: PRK00106 869307004876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869307004877 Zn2+ binding site [ion binding]; other site 869307004878 Mg2+ binding site [ion binding]; other site 869307004879 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 869307004880 hypothetical protein; Provisional; Region: PRK13670 869307004881 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 869307004882 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 869307004883 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 869307004884 S-adenosylmethionine binding site [chemical binding]; other site 869307004885 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 869307004886 Isochorismatase family; Region: Isochorismatase; pfam00857 869307004887 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 869307004888 catalytic triad [active] 869307004889 conserved cis-peptide bond; other site 869307004890 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869307004891 Zn2+ binding site [ion binding]; other site 869307004892 Mg2+ binding site [ion binding]; other site 869307004893 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 869307004894 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 869307004895 active site 869307004896 (T/H)XGH motif; other site 869307004897 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 869307004898 GTPase YqeH; Provisional; Region: PRK13796 869307004899 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 869307004900 GTP/Mg2+ binding site [chemical binding]; other site 869307004901 G4 box; other site 869307004902 G5 box; other site 869307004903 G1 box; other site 869307004904 Switch I region; other site 869307004905 G2 box; other site 869307004906 G3 box; other site 869307004907 Switch II region; other site 869307004908 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 869307004909 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 869307004910 active site 869307004911 motif I; other site 869307004912 motif II; other site 869307004913 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 869307004914 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 869307004915 Cl binding site [ion binding]; other site 869307004916 oligomer interface [polypeptide binding]; other site 869307004917 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 869307004918 Mechanosensitive ion channel; Region: MS_channel; pfam00924 869307004919 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 869307004920 serine/threonine transporter SstT; Provisional; Region: PRK14695 869307004921 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 869307004922 Predicted membrane protein [Function unknown]; Region: COG4129 869307004923 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 869307004924 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 869307004925 MarR family; Region: MarR_2; pfam12802 869307004926 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 869307004927 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869307004928 catalytic residues [active] 869307004929 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 869307004930 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 869307004931 amphipathic channel; other site 869307004932 Asn-Pro-Ala signature motifs; other site 869307004933 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 869307004934 oligoendopeptidase F; Region: pepF; TIGR00181 869307004935 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 869307004936 Zn binding site [ion binding]; other site 869307004937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 869307004938 RNA methyltransferase, RsmE family; Region: TIGR00046 869307004939 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 869307004940 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 869307004941 S-adenosylmethionine binding site [chemical binding]; other site 869307004942 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 869307004943 nudix motif; other site 869307004944 Peptidase family M50; Region: Peptidase_M50; pfam02163 869307004945 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 869307004946 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 869307004947 recombination factor protein RarA; Reviewed; Region: PRK13342 869307004948 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 869307004949 Walker A motif; other site 869307004950 ATP binding site [chemical binding]; other site 869307004951 Walker B motif; other site 869307004952 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 869307004953 arginine finger; other site 869307004954 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 869307004955 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 869307004956 Int/Topo IB signature motif; other site 869307004957 Replication initiation factor; Region: Rep_trans; pfam02486 869307004958 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 869307004959 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 869307004960 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 869307004961 substrate binding [chemical binding]; other site 869307004962 active site 869307004963 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 869307004964 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869307004965 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869307004966 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 869307004967 dimer interface [polypeptide binding]; other site 869307004968 conserved gate region; other site 869307004969 ABC-ATPase subunit interface; other site 869307004970 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 869307004971 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 869307004972 dimer interface [polypeptide binding]; other site 869307004973 conserved gate region; other site 869307004974 ABC-ATPase subunit interface; other site 869307004975 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869307004976 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869307004977 DNA binding site [nucleotide binding] 869307004978 domain linker motif; other site 869307004979 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 869307004980 dimerization interface [polypeptide binding]; other site 869307004981 ligand binding site [chemical binding]; other site 869307004982 sodium binding site [ion binding]; other site 869307004984 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 869307004985 Mga helix-turn-helix domain; Region: Mga; pfam05043 869307004986 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 869307004987 Predicted membrane protein [Function unknown]; Region: COG2261 869307004988 Small integral membrane protein [Function unknown]; Region: COG5547 869307004989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 869307004991 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 869307004992 Uncharacterized conserved protein [Function unknown]; Region: COG1262 869307004993 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 869307004994 arylsulfatase; Provisional; Region: PRK13759 869307004995 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 869307004996 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869307004997 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 869307004998 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 869307004999 active site 869307005000 methionine cluster; other site 869307005001 phosphorylation site [posttranslational modification] 869307005002 metal binding site [ion binding]; metal-binding site 869307005003 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 869307005004 active site 869307005005 P-loop; other site 869307005006 phosphorylation site [posttranslational modification] 869307005007 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 869307005008 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869307005009 MarR family; Region: MarR_2; pfam12802 869307005010 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869307005011 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 869307005012 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 869307005013 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 869307005014 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 869307005015 Coenzyme A binding pocket [chemical binding]; other site 869307005016 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 869307005017 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 869307005018 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 869307005019 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307005020 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 869307005021 non-specific DNA binding site [nucleotide binding]; other site 869307005022 salt bridge; other site 869307005023 sequence-specific DNA binding site [nucleotide binding]; other site 869307005024 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 869307005025 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 869307005026 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 869307005027 substrate binding site [chemical binding]; other site 869307005028 active site 869307005029 catalytic residues [active] 869307005030 heterodimer interface [polypeptide binding]; other site 869307005031 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 869307005032 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 869307005033 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307005034 catalytic residue [active] 869307005035 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 869307005036 active site 869307005037 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 869307005038 active site 869307005039 ribulose/triose binding site [chemical binding]; other site 869307005040 phosphate binding site [ion binding]; other site 869307005041 substrate (anthranilate) binding pocket [chemical binding]; other site 869307005042 product (indole) binding pocket [chemical binding]; other site 869307005043 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 869307005044 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 869307005045 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 869307005046 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 869307005047 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 869307005048 glutamine binding [chemical binding]; other site 869307005049 catalytic triad [active] 869307005050 anthranilate synthase component I; Provisional; Region: PRK13570 869307005051 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 869307005052 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 869307005053 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869307005054 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869307005055 DNA binding site [nucleotide binding] 869307005056 domain linker motif; other site 869307005057 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 869307005058 putative dimerization interface [polypeptide binding]; other site 869307005059 putative ligand binding site [chemical binding]; other site 869307005060 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 869307005061 MgtC family; Region: MgtC; pfam02308 869307005062 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 869307005063 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 869307005064 dimer interface [polypeptide binding]; other site 869307005065 conserved gate region; other site 869307005066 putative PBP binding loops; other site 869307005067 ABC-ATPase subunit interface; other site 869307005068 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 869307005069 putative PBP binding loops; other site 869307005070 dimer interface [polypeptide binding]; other site 869307005071 ABC-ATPase subunit interface; other site 869307005072 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 869307005073 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307005074 Walker A/P-loop; other site 869307005075 ATP binding site [chemical binding]; other site 869307005076 Q-loop/lid; other site 869307005077 ABC transporter signature motif; other site 869307005078 Walker B; other site 869307005079 D-loop; other site 869307005080 H-loop/switch region; other site 869307005081 TOBE domain; Region: TOBE; pfam03459 869307005082 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 869307005083 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 869307005084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 869307005085 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 869307005087 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869307005088 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 869307005089 Pectate lyase; Region: Pec_lyase_C; cl01593 869307005090 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 869307005091 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 869307005092 inhibitor-cofactor binding pocket; inhibition site 869307005093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307005094 catalytic residue [active] 869307005095 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 869307005096 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869307005097 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307005098 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869307005099 Walker A/P-loop; other site 869307005100 ATP binding site [chemical binding]; other site 869307005101 Q-loop/lid; other site 869307005102 ABC transporter signature motif; other site 869307005103 Walker B; other site 869307005104 D-loop; other site 869307005105 H-loop/switch region; other site 869307005106 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307005107 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 869307005108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307005109 Walker A/P-loop; other site 869307005110 ATP binding site [chemical binding]; other site 869307005111 Q-loop/lid; other site 869307005112 ABC transporter signature motif; other site 869307005113 Walker B; other site 869307005114 D-loop; other site 869307005115 H-loop/switch region; other site 869307005117 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 869307005118 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 869307005119 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 869307005120 active site 869307005121 putative catalytic site [active] 869307005122 DNA binding site [nucleotide binding] 869307005123 putative phosphate binding site [ion binding]; other site 869307005124 metal binding site A [ion binding]; metal-binding site 869307005125 AP binding site [nucleotide binding]; other site 869307005126 metal binding site B [ion binding]; metal-binding site 869307005127 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 869307005128 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 869307005129 active site 869307005130 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307005131 active site 869307005132 xanthine permease; Region: pbuX; TIGR03173 869307005133 Sulfate transporter family; Region: Sulfate_transp; pfam00916 869307005134 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 869307005135 Dam-replacing family; Region: DRP; pfam06044 869307005136 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 869307005137 CoenzymeA binding site [chemical binding]; other site 869307005138 subunit interaction site [polypeptide binding]; other site 869307005139 PHB binding site; other site 869307005140 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 869307005141 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 869307005142 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 869307005143 galactokinase; Provisional; Region: PRK05322 869307005144 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 869307005145 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 869307005146 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 869307005147 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 869307005148 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869307005149 DNA binding site [nucleotide binding] 869307005150 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 869307005151 putative dimerization interface [polypeptide binding]; other site 869307005152 putative ligand binding site [chemical binding]; other site 869307005153 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 869307005154 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869307005155 catalytic Zn binding site [ion binding]; other site 869307005156 NAD(P) binding site [chemical binding]; other site 869307005157 structural Zn binding site [ion binding]; other site 869307005158 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 869307005159 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 869307005160 DNA binding residues [nucleotide binding] 869307005161 putative dimer interface [polypeptide binding]; other site 869307005162 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 869307005163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869307005164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869307005165 nicotinamide mononucleotide transporter PnuC; Region: NMN_trans_PnuC; TIGR01528 869307005166 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 869307005167 dimer interface [polypeptide binding]; other site 869307005168 conserved gate region; other site 869307005169 ABC-ATPase subunit interface; other site 869307005170 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 869307005171 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 869307005172 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 869307005173 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307005174 Walker A/P-loop; other site 869307005175 ATP binding site [chemical binding]; other site 869307005176 Q-loop/lid; other site 869307005177 ABC transporter signature motif; other site 869307005178 Walker B; other site 869307005179 D-loop; other site 869307005180 H-loop/switch region; other site 869307005182 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 869307005183 Enterocin A Immunity; Region: EntA_Immun; pfam08951 869307005184 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 869307005185 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 869307005186 oligomer interface [polypeptide binding]; other site 869307005187 active site 869307005188 metal binding site [ion binding]; metal-binding site 869307005189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869307005190 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 869307005191 NAD(P) binding site [chemical binding]; other site 869307005192 active site 869307005193 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 869307005194 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 869307005195 ABC-ATPase subunit interface; other site 869307005196 dimer interface [polypeptide binding]; other site 869307005197 putative PBP binding regions; other site 869307005198 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 869307005199 ABC-ATPase subunit interface; other site 869307005200 dimer interface [polypeptide binding]; other site 869307005201 putative PBP binding regions; other site 869307005202 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 869307005203 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 869307005204 Walker A/P-loop; other site 869307005205 ATP binding site [chemical binding]; other site 869307005206 Q-loop/lid; other site 869307005207 ABC transporter signature motif; other site 869307005208 Walker B; other site 869307005209 D-loop; other site 869307005210 H-loop/switch region; other site 869307005211 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 869307005212 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 869307005213 putative ligand binding residues [chemical binding]; other site 869307005214 hypothetical protein; Validated; Region: PRK00041 869307005215 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 869307005216 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 869307005217 RNA binding surface [nucleotide binding]; other site 869307005218 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 869307005219 active site 869307005220 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 869307005221 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 869307005222 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 869307005223 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 869307005224 DNA binding site [nucleotide binding] 869307005225 Int/Topo IB signature motif; other site 869307005226 active site 869307005227 catalytic residues [active] 869307005228 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 869307005229 FOG: CBS domain [General function prediction only]; Region: COG0517 869307005230 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 869307005231 active site 869307005232 metal binding site [ion binding]; metal-binding site 869307005233 homotetramer interface [polypeptide binding]; other site 869307005234 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 869307005235 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 869307005236 active site 869307005237 dimerization interface [polypeptide binding]; other site 869307005238 Glutamate racemase [Cell envelope biogenesis, outer membrane]; Region: MurI; COG0796 869307005239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 869307005240 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 869307005241 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 869307005242 Ca binding site [ion binding]; other site 869307005243 active site 869307005244 catalytic site [active] 869307005245 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 869307005246 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 869307005247 active site turn [active] 869307005248 phosphorylation site [posttranslational modification] 869307005249 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 869307005250 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 869307005251 HPr interaction site; other site 869307005252 glycerol kinase (GK) interaction site [polypeptide binding]; other site 869307005253 active site 869307005254 phosphorylation site [posttranslational modification] 869307005255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307005256 DNA-binding site [nucleotide binding]; DNA binding site 869307005257 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 869307005258 UTRA domain; Region: UTRA; pfam07702 869307005260 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 869307005261 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 869307005262 Walker A/P-loop; other site 869307005263 ATP binding site [chemical binding]; other site 869307005264 Q-loop/lid; other site 869307005265 ABC transporter signature motif; other site 869307005266 Walker B; other site 869307005267 D-loop; other site 869307005268 H-loop/switch region; other site 869307005269 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 869307005270 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 869307005271 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 869307005272 Walker A/P-loop; other site 869307005273 ATP binding site [chemical binding]; other site 869307005274 Q-loop/lid; other site 869307005275 ABC transporter signature motif; other site 869307005276 Walker B; other site 869307005277 D-loop; other site 869307005278 H-loop/switch region; other site 869307005279 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 869307005280 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 869307005281 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 869307005282 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 869307005283 dimer interface [polypeptide binding]; other site 869307005284 conserved gate region; other site 869307005285 putative PBP binding loops; other site 869307005286 ABC-ATPase subunit interface; other site 869307005287 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 869307005288 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 869307005289 dimer interface [polypeptide binding]; other site 869307005290 conserved gate region; other site 869307005291 putative PBP binding loops; other site 869307005292 ABC-ATPase subunit interface; other site 869307005293 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 869307005294 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 869307005295 peptide binding site [polypeptide binding]; other site 869307005296 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 869307005297 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 869307005298 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 869307005299 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 869307005300 active site 869307005301 homodimer interface [polypeptide binding]; other site 869307005302 catalytic site [active] 869307005303 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869307005304 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 869307005305 dimer interface [polypeptide binding]; other site 869307005306 conserved gate region; other site 869307005307 putative PBP binding loops; other site 869307005308 ABC-ATPase subunit interface; other site 869307005309 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 869307005310 dimer interface [polypeptide binding]; other site 869307005311 conserved gate region; other site 869307005312 putative PBP binding loops; other site 869307005313 ABC-ATPase subunit interface; other site 869307005314 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869307005315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869307005316 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869307005317 Melibiase; Region: Melibiase; pfam02065 869307005318 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 869307005319 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869307005320 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 869307005321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 869307005322 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 869307005323 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307005324 DNA-binding site [nucleotide binding]; DNA binding site 869307005325 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 869307005326 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 869307005327 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 869307005328 TRAM domain; Region: TRAM; cl01282 869307005329 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 869307005330 S-adenosylmethionine binding site [chemical binding]; other site 869307005331 recombination regulator RecX; Provisional; Region: recX; PRK14135 869307005332 hypothetical protein; Provisional; Region: PRK13662 869307005334 Methyltransferase domain; Region: Methyltransf_31; pfam13847 869307005335 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 869307005336 S-adenosylmethionine binding site [chemical binding]; other site 869307005337 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 869307005338 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 869307005339 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 869307005340 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 869307005341 ring oligomerisation interface [polypeptide binding]; other site 869307005342 ATP/Mg binding site [chemical binding]; other site 869307005343 stacking interactions; other site 869307005344 hinge regions; other site 869307005345 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 869307005346 oligomerisation interface [polypeptide binding]; other site 869307005347 mobile loop; other site 869307005348 roof hairpin; other site 869307005349 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 869307005350 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 869307005351 dimer interface [polypeptide binding]; other site 869307005352 ssDNA binding site [nucleotide binding]; other site 869307005353 tetramer (dimer of dimers) interface [polypeptide binding]; other site 869307005354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 869307005355 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 869307005356 NAD(P) binding site [chemical binding]; other site 869307005357 active site 869307005358 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 869307005359 putative tRNA-binding site [nucleotide binding]; other site 869307005360 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 869307005361 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 869307005362 catalytic residues [active] 869307005363 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307005364 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 869307005365 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869307005366 LytTr DNA-binding domain; Region: LytTR; pfam04397 869307005367 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 869307005368 active site 869307005369 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 869307005370 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 869307005371 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 869307005372 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307005373 Walker A/P-loop; other site 869307005374 ATP binding site [chemical binding]; other site 869307005375 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 869307005376 Walker A/P-loop; other site 869307005377 ATP binding site [chemical binding]; other site 869307005378 Q-loop/lid; other site 869307005379 ABC transporter signature motif; other site 869307005380 Walker B; other site 869307005381 D-loop; other site 869307005382 H-loop/switch region; other site 869307005384 MarR family; Region: MarR_2; pfam12802 869307005385 Transcriptional regulators [Transcription]; Region: MarR; COG1846 869307005386 hypothetical protein; Provisional; Region: PRK12378 869307005387 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 869307005388 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 869307005389 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 869307005392 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 869307005393 Domain of unknown function (DUF955); Region: DUF955; cl01076 869307005394 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307005395 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 869307005396 non-specific DNA binding site [nucleotide binding]; other site 869307005397 salt bridge; other site 869307005398 sequence-specific DNA binding site [nucleotide binding]; other site 869307005399 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307005400 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 869307005401 amidase catalytic site [active] 869307005402 Zn binding residues [ion binding]; other site 869307005403 substrate binding site [chemical binding]; other site 869307005404 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307005405 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307005406 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 869307005407 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 869307005408 recombinase A; Provisional; Region: recA; PRK09354 869307005409 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 869307005410 hexamer interface [polypeptide binding]; other site 869307005411 Walker A motif; other site 869307005412 ATP binding site [chemical binding]; other site 869307005413 Walker B motif; other site 869307005414 competence damage-inducible protein A; Provisional; Region: PRK00549 869307005415 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 869307005416 putative MPT binding site; other site 869307005417 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 869307005418 Transcriptional regulator [Transcription]; Region: LytR; COG1316 869307005419 putative acetyltransferase YhhY; Provisional; Region: PRK10140 869307005420 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 869307005421 Coenzyme A binding pocket [chemical binding]; other site 869307005422 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 869307005423 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307005424 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 869307005425 non-specific DNA binding site [nucleotide binding]; other site 869307005426 salt bridge; other site 869307005427 sequence-specific DNA binding site [nucleotide binding]; other site 869307005428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869307005429 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869307005430 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869307005431 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869307005432 Walker A/P-loop; other site 869307005433 ATP binding site [chemical binding]; other site 869307005434 Q-loop/lid; other site 869307005435 ABC transporter signature motif; other site 869307005436 Walker B; other site 869307005437 D-loop; other site 869307005438 H-loop/switch region; other site 869307005439 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 869307005440 active site 869307005441 multimer interface [polypeptide binding]; other site 869307005442 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 869307005443 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 869307005444 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 869307005445 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 869307005446 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 869307005447 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 869307005448 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 869307005449 G-loop; other site 869307005450 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 869307005451 DNA binding site [nucleotide binding] 869307005452 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 869307005453 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 869307005454 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 869307005455 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 869307005456 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 869307005457 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 869307005458 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 869307005459 RPB1 interaction site [polypeptide binding]; other site 869307005460 RPB10 interaction site [polypeptide binding]; other site 869307005461 RPB11 interaction site [polypeptide binding]; other site 869307005462 RPB3 interaction site [polypeptide binding]; other site 869307005463 RPB12 interaction site [polypeptide binding]; other site 869307005464 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 869307005465 Domain of unknown function DUF21; Region: DUF21; pfam01595 869307005466 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 869307005467 Transporter associated domain; Region: CorC_HlyC; smart01091 869307005468 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 869307005469 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 869307005470 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 869307005471 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 869307005472 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 869307005473 hinge; other site 869307005474 active site 869307005475 Protein of unknown function (DUF1146); Region: DUF1146; pfam06612 869307005476 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 869307005477 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 869307005478 protein binding site [polypeptide binding]; other site 869307005479 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 869307005480 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 869307005481 active site 869307005482 (T/H)XGH motif; other site 869307005483 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 869307005484 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 869307005485 S-adenosylmethionine binding site [chemical binding]; other site 869307005486 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 869307005487 dimer interface [polypeptide binding]; other site 869307005488 active site 869307005489 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 869307005490 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 869307005491 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 869307005492 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 869307005493 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 869307005494 acylphosphatase; Provisional; Region: PRK14434 869307005495 OxaA-like protein precursor; Provisional; Region: PRK02463 869307005496 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 869307005497 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 869307005498 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 869307005499 FeS/SAM binding site; other site 869307005500 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 869307005501 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 869307005502 active site 869307005503 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 869307005504 substrate binding site [chemical binding]; other site 869307005505 catalytic residues [active] 869307005506 dimer interface [polypeptide binding]; other site 869307005507 pur operon repressor; Provisional; Region: PRK09213 869307005508 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 869307005509 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307005510 active site 869307005511 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 869307005512 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 869307005513 generic binding surface II; other site 869307005514 generic binding surface I; other site 869307005515 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 869307005516 Zn2+ binding site [ion binding]; other site 869307005517 Mg2+ binding site [ion binding]; other site 869307005518 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 869307005519 RmuC family; Region: RmuC; pfam02646 869307005520 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 869307005521 Thiamine pyrophosphokinase; Region: TPK; cd07995 869307005522 active site 869307005523 dimerization interface [polypeptide binding]; other site 869307005524 thiamine binding site [chemical binding]; other site 869307005525 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 869307005526 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 869307005527 substrate binding site [chemical binding]; other site 869307005528 hexamer interface [polypeptide binding]; other site 869307005529 metal binding site [ion binding]; metal-binding site 869307005530 GTPase RsgA; Reviewed; Region: PRK00098 869307005531 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 869307005532 RNA binding site [nucleotide binding]; other site 869307005533 homodimer interface [polypeptide binding]; other site 869307005534 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 869307005535 GTPase/Zn-binding domain interface [polypeptide binding]; other site 869307005536 GTP/Mg2+ binding site [chemical binding]; other site 869307005537 G4 box; other site 869307005538 G5 box; other site 869307005539 G1 box; other site 869307005540 Switch I region; other site 869307005541 G2 box; other site 869307005542 G3 box; other site 869307005543 Switch II region; other site 869307005544 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 869307005545 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 869307005546 S-adenosylmethionine binding site [chemical binding]; other site 869307005547 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 869307005548 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 869307005549 Walker A/P-loop; other site 869307005550 ATP binding site [chemical binding]; other site 869307005551 Q-loop/lid; other site 869307005552 ABC transporter signature motif; other site 869307005553 Walker B; other site 869307005554 D-loop; other site 869307005555 H-loop/switch region; other site 869307005556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 869307005557 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 869307005558 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 869307005559 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307005560 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 869307005561 non-specific DNA binding site [nucleotide binding]; other site 869307005562 salt bridge; other site 869307005563 sequence-specific DNA binding site [nucleotide binding]; other site 869307005564 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 869307005565 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 869307005566 putative active site [active] 869307005567 putative metal binding site [ion binding]; other site 869307005568 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 869307005569 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 869307005570 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 869307005571 active site 869307005572 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 869307005573 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 869307005574 aminotransferase AlaT; Validated; Region: PRK09265 869307005575 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 869307005576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307005577 homodimer interface [polypeptide binding]; other site 869307005578 catalytic residue [active] 869307005579 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 869307005580 Ligand Binding Site [chemical binding]; other site 869307005581 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 869307005582 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 869307005583 active site 869307005584 motif I; other site 869307005585 motif II; other site 869307005586 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 869307005587 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 869307005588 putative nucleotide binding site [chemical binding]; other site 869307005589 putative metal binding site [ion binding]; other site 869307005590 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 869307005591 active site 869307005592 homotetramer interface [polypeptide binding]; other site 869307005593 homodimer interface [polypeptide binding]; other site 869307005594 catabolite control protein A; Region: ccpA; TIGR01481 869307005595 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869307005596 DNA binding site [nucleotide binding] 869307005597 domain linker motif; other site 869307005598 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 869307005599 dimerization interface [polypeptide binding]; other site 869307005600 effector binding site; other site 869307005601 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 869307005602 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 869307005603 active site 869307005604 phosphorylation site [posttranslational modification] 869307005605 intermolecular recognition site; other site 869307005606 dimerization interface [polypeptide binding]; other site 869307005607 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 869307005608 DNA binding residues [nucleotide binding] 869307005609 dimerization interface [polypeptide binding]; other site 869307005610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 869307005611 Histidine kinase; Region: HisKA_3; pfam07730 869307005612 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 869307005613 ATP binding site [chemical binding]; other site 869307005614 Mg2+ binding site [ion binding]; other site 869307005615 G-X-G motif; other site 869307005616 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 869307005617 ABC-2 type transporter; Region: ABC2_membrane; cl17235 869307005618 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 869307005619 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 869307005620 Walker A/P-loop; other site 869307005621 ATP binding site [chemical binding]; other site 869307005622 Q-loop/lid; other site 869307005623 ABC transporter signature motif; other site 869307005624 Walker B; other site 869307005625 D-loop; other site 869307005626 H-loop/switch region; other site 869307005627 manually curated to include N-terminal signal sequence 869307005628 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 869307005629 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 869307005630 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 869307005631 putative homodimer interface [polypeptide binding]; other site 869307005632 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 869307005633 heterodimer interface [polypeptide binding]; other site 869307005634 homodimer interface [polypeptide binding]; other site 869307005635 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 869307005636 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 869307005637 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 869307005638 Transglycosylase; Region: Transgly; pfam00912 869307005639 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869307005640 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 869307005641 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 869307005642 active site 869307005643 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 869307005644 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 869307005645 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 869307005646 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 869307005647 FtsX-like permease family; Region: FtsX; pfam02687 869307005649 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 869307005650 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 869307005651 dimerization interface [polypeptide binding]; other site 869307005652 active site 869307005653 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 869307005654 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 869307005656 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 869307005657 Walker A/P-loop; other site 869307005658 ATP binding site [chemical binding]; other site 869307005659 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 869307005660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 869307005661 DNA-binding site [nucleotide binding]; DNA binding site 869307005662 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 869307005663 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 869307005664 beta-galactosidase; Region: BGL; TIGR03356 869307005665 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 869307005666 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 869307005667 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 869307005668 active site 869307005669 P-loop; other site 869307005670 phosphorylation site [posttranslational modification] 869307005671 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 869307005672 methionine cluster; other site 869307005673 active site 869307005674 phosphorylation site [posttranslational modification] 869307005675 metal binding site [ion binding]; metal-binding site 869307005676 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 869307005677 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 869307005678 putative catalytic cysteine [active] 869307005679 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 869307005680 putative active site [active] 869307005681 metal binding site [ion binding]; metal-binding site 869307005682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 869307005683 MORN repeat; Region: MORN; cl14787 869307005684 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 869307005685 Low molecular weight phosphatase family; Region: LMWPc; cd00115 869307005686 active site 869307005687 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 869307005688 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 869307005689 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 869307005690 TPP-binding site [chemical binding]; other site 869307005691 dimer interface [polypeptide binding]; other site 869307005692 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 869307005693 PYR/PP interface [polypeptide binding]; other site 869307005694 dimer interface [polypeptide binding]; other site 869307005695 TPP binding site [chemical binding]; other site 869307005696 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869307005697 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 869307005698 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 869307005699 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869307005700 PRD domain; Region: PRD; pfam00874 869307005701 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 869307005702 active site 869307005703 P-loop; other site 869307005704 phosphorylation site [posttranslational modification] 869307005705 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 869307005706 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 869307005707 intersubunit interface [polypeptide binding]; other site 869307005708 active site 869307005709 Zn2+ binding site [ion binding]; other site 869307005710 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 869307005711 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 869307005712 AP (apurinic/apyrimidinic) site pocket; other site 869307005713 DNA interaction; other site 869307005714 Metal-binding active site; metal-binding site 869307005715 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 869307005716 active site 869307005717 dimer interface [polypeptide binding]; other site 869307005718 magnesium binding site [ion binding]; other site 869307005719 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 869307005720 active site 869307005721 phosphorylation site [posttranslational modification] 869307005722 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 869307005723 active site 869307005724 P-loop; other site 869307005725 phosphorylation site [posttranslational modification] 869307005726 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 869307005727 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 869307005728 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 869307005729 G-X-X-G motif; other site 869307005730 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 869307005731 RxxxH motif; other site 869307005732 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 869307005733 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 869307005734 ribonuclease P; Reviewed; Region: rnpA; PRK00499 869307005735 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 869307005736 propionate/acetate kinase; Provisional; Region: PRK12379 869307005737 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 869307005738 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 869307005739 S-adenosylmethionine binding site [chemical binding]; other site 869307005741 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 869307005742 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 869307005743 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 869307005744 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 869307005745 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 869307005746 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 869307005747 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 869307005748 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 869307005749 Walker A motif; other site 869307005750 ATP binding site [chemical binding]; other site 869307005751 Walker B motif; other site 869307005752 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 869307005753 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 869307005754 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 869307005755 catalytic Zn binding site [ion binding]; other site 869307005756 structural Zn binding site [ion binding]; other site 869307005757 NAD(P) binding site [chemical binding]; other site 869307005758 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 869307005759 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 869307005760 active site 869307005761 dimer interface [polypeptide binding]; other site 869307005762 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 869307005763 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 869307005764 catalytic triad [active] 869307005765 catalytic triad [active] 869307005766 oxyanion hole [active] 869307005767 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 869307005768 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 869307005769 Predicted integral membrane protein [Function unknown]; Region: COG5523 869307005771 Predicted membrane protein [Function unknown]; Region: COG3759 869307005772 Transcriptional regulators [Transcription]; Region: MarR; COG1846 869307005773 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 869307005774 putative DNA binding site [nucleotide binding]; other site 869307005775 putative Zn2+ binding site [ion binding]; other site 869307005776 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 869307005777 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 869307005778 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 869307005779 motif II; other site 869307005780 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 869307005781 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 869307005782 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 869307005783 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 869307005784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307005785 catalytic residue [active] 869307005786 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 869307005787 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 869307005788 active site 869307005789 catalytic motif [active] 869307005790 Zn binding site [ion binding]; other site 869307005791 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 869307005792 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 869307005793 active site 869307005794 HIGH motif; other site 869307005795 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 869307005796 active site 869307005797 KMSKS motif; other site 869307005798 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 869307005799 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 869307005800 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 869307005801 active site 869307005802 dimer interface [polypeptide binding]; other site 869307005803 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 869307005804 dimer interface [polypeptide binding]; other site 869307005805 active site 869307005806 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 869307005807 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 869307005808 catalytic triad [active] 869307005809 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869307005810 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307005811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307005812 Walker A/P-loop; other site 869307005813 ATP binding site [chemical binding]; other site 869307005814 Q-loop/lid; other site 869307005815 ABC transporter signature motif; other site 869307005816 Walker B; other site 869307005817 D-loop; other site 869307005818 H-loop/switch region; other site 869307005820 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 869307005821 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 869307005822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307005823 Walker A/P-loop; other site 869307005824 ATP binding site [chemical binding]; other site 869307005825 Q-loop/lid; other site 869307005826 ABC transporter signature motif; other site 869307005827 Walker B; other site 869307005828 D-loop; other site 869307005829 H-loop/switch region; other site 869307005830 DNA mismatch repair protein MutS; Region: mutS1; TIGR01070 869307005831 MutS domain I; Region: MutS_I; pfam01624 869307005832 MutS domain II; Region: MutS_II; pfam05188 869307005833 MutS domain III; Region: MutS_III; pfam05192 869307005834 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 869307005835 Walker A/P-loop; other site 869307005836 ATP binding site [chemical binding]; other site 869307005837 Q-loop/lid; other site 869307005838 ABC transporter signature motif; other site 869307005839 Walker B; other site 869307005840 D-loop; other site 869307005841 H-loop/switch region; other site 869307005842 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 869307005843 arginine repressor; Region: argR_whole; TIGR01529 869307005844 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 869307005845 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 869307005846 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 869307005847 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 869307005848 active site 869307005849 HIGH motif; other site 869307005850 KMSK motif region; other site 869307005851 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 869307005852 tRNA binding surface [nucleotide binding]; other site 869307005853 anticodon binding site; other site 869307005855 Uncharacterized conserved protein [Function unknown]; Region: COG3542 869307005856 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307005857 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 869307005858 active site 869307005859 phosphorylation site [posttranslational modification] 869307005860 intermolecular recognition site; other site 869307005861 dimerization interface [polypeptide binding]; other site 869307005862 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 869307005863 DNA binding site [nucleotide binding] 869307005864 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 869307005865 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 869307005866 dimer interface [polypeptide binding]; other site 869307005867 phosphorylation site [posttranslational modification] 869307005868 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 869307005869 ATP binding site [chemical binding]; other site 869307005870 G-X-G motif; other site 869307005871 PBP superfamily domain; Region: PBP_like_2; cl17296 869307005872 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 869307005873 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 869307005874 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 869307005875 dimer interface [polypeptide binding]; other site 869307005876 conserved gate region; other site 869307005877 putative PBP binding loops; other site 869307005878 ABC-ATPase subunit interface; other site 869307005879 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 869307005880 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 869307005881 dimer interface [polypeptide binding]; other site 869307005882 conserved gate region; other site 869307005883 putative PBP binding loops; other site 869307005884 ABC-ATPase subunit interface; other site 869307005885 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 869307005886 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 869307005887 Walker A/P-loop; other site 869307005888 ATP binding site [chemical binding]; other site 869307005889 Q-loop/lid; other site 869307005890 ABC transporter signature motif; other site 869307005891 Walker B; other site 869307005892 D-loop; other site 869307005893 H-loop/switch region; other site 869307005894 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 869307005895 PhoU domain; Region: PhoU; pfam01895 869307005896 PhoU domain; Region: PhoU; pfam01895 869307005898 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 869307005899 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 869307005900 non-specific DNA binding site [nucleotide binding]; other site 869307005901 salt bridge; other site 869307005902 sequence-specific DNA binding site [nucleotide binding]; other site 869307005903 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 869307005904 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 869307005905 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 869307005906 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 869307005907 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 869307005908 active site 869307005909 tetramer interface; other site 869307005910 Rhomboid family; Region: Rhomboid; pfam01694 869307005911 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 869307005912 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 869307005913 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 869307005914 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 869307005915 metal binding site [ion binding]; metal-binding site 869307005916 putative dimer interface [polypeptide binding]; other site 869307005917 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 869307005918 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 869307005919 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 869307005920 trimer interface [polypeptide binding]; other site 869307005921 active site 869307005922 substrate binding site [chemical binding]; other site 869307005923 CoA binding site [chemical binding]; other site 869307005924 EamA-like transporter family; Region: EamA; pfam00892 869307005925 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 869307005926 Transglycosylase; Region: Transgly; pfam00912 869307005927 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 869307005928 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 869307005929 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 869307005930 active site 869307005931 HIGH motif; other site 869307005932 dimer interface [polypeptide binding]; other site 869307005933 KMSKS motif; other site 869307005934 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 869307005935 RNA binding surface [nucleotide binding]; other site 869307005936 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 869307005937 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 869307005938 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 869307005939 motif II; other site 869307005940 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 869307005941 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 869307005942 S-adenosylmethionine binding site [chemical binding]; other site 869307005943 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 869307005944 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 869307005945 4-alpha-glucanotransferase; Provisional; Region: PRK14508 869307005946 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 869307005947 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869307005948 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 869307005949 dimer interface [polypeptide binding]; other site 869307005950 conserved gate region; other site 869307005951 putative PBP binding loops; other site 869307005952 ABC-ATPase subunit interface; other site 869307005953 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869307005954 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 869307005955 dimer interface [polypeptide binding]; other site 869307005956 conserved gate region; other site 869307005957 putative PBP binding loops; other site 869307005958 ABC-ATPase subunit interface; other site 869307005959 Predicted integral membrane protein [Function unknown]; Region: COG5521 869307005960 Transcriptional regulators [Transcription]; Region: PurR; COG1609 869307005961 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 869307005962 DNA binding site [nucleotide binding] 869307005963 domain linker motif; other site 869307005964 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 869307005965 putative dimerization interface [polypeptide binding]; other site 869307005966 putative ligand binding site [chemical binding]; other site 869307005967 Uncharacterized conserved protein [Function unknown]; Region: COG1284 869307005968 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869307005969 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 869307005970 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 869307005971 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 869307005972 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 869307005973 dimer interface [polypeptide binding]; other site 869307005974 anticodon binding site; other site 869307005975 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 869307005976 homodimer interface [polypeptide binding]; other site 869307005977 motif 1; other site 869307005978 active site 869307005979 motif 2; other site 869307005980 GAD domain; Region: GAD; pfam02938 869307005981 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 869307005982 motif 3; other site 869307005983 CAAX protease self-immunity; Region: Abi; pfam02517 869307005984 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 869307005985 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 869307005986 non-specific DNA binding site [nucleotide binding]; other site 869307005987 salt bridge; other site 869307005988 sequence-specific DNA binding site [nucleotide binding]; other site 869307005989 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 869307005990 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 869307005991 dimer interface [polypeptide binding]; other site 869307005992 motif 1; other site 869307005993 active site 869307005994 motif 2; other site 869307005995 motif 3; other site 869307005996 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 869307005997 anticodon binding site; other site 869307005998 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 869307005999 non-specific DNA binding site [nucleotide binding]; other site 869307006000 salt bridge; other site 869307006001 sequence-specific DNA binding site [nucleotide binding]; other site 869307006002 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 869307006003 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 869307006004 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 869307006005 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 869307006006 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 869307006007 PYR/PP interface [polypeptide binding]; other site 869307006008 dimer interface [polypeptide binding]; other site 869307006009 TPP binding site [chemical binding]; other site 869307006010 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 869307006011 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 869307006012 TPP-binding site [chemical binding]; other site 869307006013 dimer interface [polypeptide binding]; other site 869307006014 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 869307006015 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 869307006016 active site 869307006017 P-loop; other site 869307006018 phosphorylation site [posttranslational modification] 869307006019 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 869307006020 PRD domain; Region: PRD; pfam00874 869307006021 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 869307006022 active site 869307006023 P-loop; other site 869307006024 phosphorylation site [posttranslational modification] 869307006025 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 869307006026 active site 869307006027 phosphorylation site [posttranslational modification] 869307006028 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 869307006029 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 869307006030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 869307006031 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 869307006032 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 869307006033 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 869307006034 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 869307006035 putative active site [active] 869307006036 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 869307006037 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 869307006038 nucleotide binding site [chemical binding]; other site 869307006039 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 869307006040 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 869307006041 active site 869307006042 metal binding site [ion binding]; metal-binding site 869307006043 homodimer interface [polypeptide binding]; other site 869307006044 catalytic site [active] 869307006045 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 869307006046 Uncharacterized conserved protein [Function unknown]; Region: COG3538 869307006047 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 869307006048 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 869307006049 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 869307006050 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 869307006051 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 869307006052 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 869307006053 arginine deiminase; Provisional; Region: PRK01388 869307006054 ornithine carbamoyltransferase; Validated; Region: PRK02102 869307006055 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 869307006056 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 869307006057 carbamate kinase; Reviewed; Region: PRK12686 869307006058 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 869307006059 putative substrate binding site [chemical binding]; other site 869307006060 nucleotide binding site [chemical binding]; other site 869307006061 nucleotide binding site [chemical binding]; other site 869307006062 homodimer interface [polypeptide binding]; other site 869307006063 Predicted membrane protein [Function unknown]; Region: COG1288 869307006064 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 869307006065 hypothetical protein; Provisional; Region: PRK07205 869307006066 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 869307006067 active site 869307006068 metal binding site [ion binding]; metal-binding site 869307006070 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 869307006071 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 869307006072 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 869307006073 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 869307006074 dimer interface [polypeptide binding]; other site 869307006075 active site 869307006076 metal binding site [ion binding]; metal-binding site 869307006077 L-fucose isomerase; Provisional; Region: fucI; PRK10991 869307006078 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 869307006079 hexamer (dimer of trimers) interface [polypeptide binding]; other site 869307006080 trimer interface [polypeptide binding]; other site 869307006081 substrate binding site [chemical binding]; other site 869307006082 Mn binding site [ion binding]; other site 869307006083 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 869307006084 intersubunit interface [polypeptide binding]; other site 869307006085 active site 869307006086 Zn2+ binding site [ion binding]; other site 869307006087 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 869307006088 NPCBM/NEW2 domain; Region: NPCBM; pfam08305 869307006089 Glycosyl hydrolase family 98; Region: Glyco_hydro_98M; pfam08306 869307006090 Glycosyl hydrolase family 98 C-terminal domain; Region: Glyco_hydro_98C; pfam08307 869307006091 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869307006092 Melibiase; Region: Melibiase; pfam02065 869307006093 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 869307006094 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 869307006095 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 869307006097 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 869307006098 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 869307006099 dimer interface [polypeptide binding]; other site 869307006100 conserved gate region; other site 869307006101 putative PBP binding loops; other site 869307006102 ABC-ATPase subunit interface; other site 869307006103 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 869307006104 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 869307006105 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 869307006106 N- and C-terminal domain interface [polypeptide binding]; other site 869307006107 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 869307006108 active site 869307006109 putative catalytic site [active] 869307006110 metal binding site [ion binding]; metal-binding site 869307006111 ATP binding site [chemical binding]; other site 869307006112 carbohydrate binding site [chemical binding]; other site 869307006113 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 869307006114 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 869307006115 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 869307006116 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 869307006117 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 869307006118 metal binding site [ion binding]; metal-binding site 869307006119 YodA lipocalin-like domain; Region: YodA; pfam09223 869307006120 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 869307006121 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 869307006122 ABC-ATPase subunit interface; other site 869307006123 dimer interface [polypeptide binding]; other site 869307006124 putative PBP binding regions; other site 869307006125 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 869307006126 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 869307006127 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 869307006128 putative DNA binding site [nucleotide binding]; other site 869307006129 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 869307006130 DltD N-terminal region; Region: DltD_N; pfam04915 869307006131 DltD central region; Region: DltD_M; pfam04918 869307006132 DltD C-terminal region; Region: DltD_C; pfam04914 869307006133 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 869307006134 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 869307006135 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 869307006136 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 869307006137 acyl-activating enzyme (AAE) consensus motif; other site 869307006138 AMP binding site [chemical binding]; other site 869307006139 H+ Antiporter protein; Region: 2A0121; TIGR00900 869307006140 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 869307006141 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 869307006142 putative active site [active] 869307006143 putative NTP binding site [chemical binding]; other site 869307006144 putative nucleic acid binding site [nucleotide binding]; other site 869307006145 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 869307006146 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 869307006147 amphipathic channel; other site 869307006148 Asn-Pro-Ala signature motifs; other site 869307006149 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 869307006150 glycerol kinase; Provisional; Region: glpK; PRK00047 869307006151 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 869307006152 N- and C-terminal domain interface [polypeptide binding]; other site 869307006153 active site 869307006154 MgATP binding site [chemical binding]; other site 869307006155 catalytic site [active] 869307006156 metal binding site [ion binding]; metal-binding site 869307006157 glycerol binding site [chemical binding]; other site 869307006158 homotetramer interface [polypeptide binding]; other site 869307006159 homodimer interface [polypeptide binding]; other site 869307006160 FBP binding site [chemical binding]; other site 869307006161 protein IIAGlc interface [polypeptide binding]; other site 869307006162 Mga helix-turn-helix domain; Region: Mga; pfam05043 869307006163 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 869307006164 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 869307006165 dimerization interface [polypeptide binding]; other site 869307006166 domain crossover interface; other site 869307006167 redox-dependent activation switch; other site 869307006168 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 869307006169 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 869307006170 FMN binding site [chemical binding]; other site 869307006171 active site 869307006172 catalytic residues [active] 869307006173 substrate binding site [chemical binding]; other site 869307006174 Gram-positive signal peptide, YSIRK family; Region: YSIRK_signal; TIGR01168 869307006175 RICH domain; Region: RICH; pfam05062 869307006176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 869307006177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 869307006178 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 869307006179 dimerization interface [polypeptide binding]; other site 869307006180 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 869307006181 dimer interface [polypeptide binding]; other site 869307006182 phosphorylation site [posttranslational modification] 869307006183 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 869307006184 ATP binding site [chemical binding]; other site 869307006185 Mg2+ binding site [ion binding]; other site 869307006186 G-X-G motif; other site 869307006187 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 869307006188 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 869307006189 active site 869307006190 phosphorylation site [posttranslational modification] 869307006191 intermolecular recognition site; other site 869307006192 dimerization interface [polypeptide binding]; other site 869307006193 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 869307006194 DNA binding site [nucleotide binding] 869307006195 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 869307006196 Clp amino terminal domain; Region: Clp_N; pfam02861 869307006197 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 869307006198 Walker A motif; other site 869307006199 ATP binding site [chemical binding]; other site 869307006200 Walker B motif; other site 869307006201 arginine finger; other site 869307006202 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 869307006203 Walker A motif; other site 869307006204 ATP binding site [chemical binding]; other site 869307006205 Walker B motif; other site 869307006206 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 869307006207 Transcriptional repressor of class III stress genes [Transcription]; Region: CtsR; COG4463 869307006208 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 869307006209 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 869307006210 Walker A/P-loop; other site 869307006211 ATP binding site [chemical binding]; other site 869307006212 Q-loop/lid; other site 869307006213 ABC transporter signature motif; other site 869307006214 Walker B; other site 869307006215 D-loop; other site 869307006216 H-loop/switch region; other site 869307006217 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 869307006218 NMT1/THI5 like; Region: NMT1; pfam09084 869307006219 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 869307006220 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 869307006221 Uncharacterized conserved protein [Function unknown]; Region: COG0011 869307006222 Surface antigen [General function prediction only]; Region: COG3942 869307006223 CHAP domain; Region: CHAP; pfam05257 869307006224 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 869307006225 Bacterial SH3 domain; Region: SH3_5; pfam08460 869307006226 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 869307006227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 869307006228 replicative DNA helicase; Provisional; Region: PRK05748 869307006229 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 869307006230 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 869307006231 Walker A motif; other site 869307006232 ATP binding site [chemical binding]; other site 869307006233 Walker B motif; other site 869307006234 DNA binding loops [nucleotide binding] 869307006235 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 869307006236 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 869307006237 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 869307006238 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 869307006239 DHH family; Region: DHH; pfam01368 869307006240 DHHA1 domain; Region: DHHA1; pfam02272 869307006241 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 869307006242 30S subunit binding site; other site 869307006243 comF family protein; Region: comF; TIGR00201 869307006244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 869307006245 active site 869307006246 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 869307006247 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 869307006248 ATP binding site [chemical binding]; other site 869307006249 putative Mg++ binding site [ion binding]; other site 869307006250 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 869307006251 nucleotide binding region [chemical binding]; other site 869307006252 ATP-binding site [chemical binding]; other site 869307006253 Uncharacterized conserved protein [Function unknown]; Region: COG1739 869307006254 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 869307006255 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 869307006256 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 869307006257 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 869307006258 dimer interface [polypeptide binding]; other site 869307006259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 869307006260 catalytic residue [active] 869307006264 elongation factor Ts; Provisional; Region: tsf; PRK09377 869307006265 UBA/TS-N domain; Region: UBA; pfam00627 869307006266 Elongation factor TS; Region: EF_TS; pfam00889 869307006267 Elongation factor TS; Region: EF_TS; pfam00889 869307006268 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 869307006269 rRNA interaction site [nucleotide binding]; other site 869307006270 S8 interaction site; other site 869307006271 putative laminin-1 binding site; other site 869307006272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 869307006273 Septum formation initiator; Region: DivIC; cl17659 869307006274 Surface antigen [General function prediction only]; Region: COG3942 869307006275 CHAP domain; Region: CHAP; pfam05257 869307006276 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 869307006277 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 869307006278 rod shape-determining protein MreC; Region: MreC; pfam04085 869307006279 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 869307006280 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 869307006281 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869307006282 Walker A/P-loop; other site 869307006283 ATP binding site [chemical binding]; other site 869307006284 Q-loop/lid; other site 869307006285 ABC transporter signature motif; other site 869307006286 Walker B; other site 869307006287 D-loop; other site 869307006288 H-loop/switch region; other site 869307006289 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 869307006290 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 869307006291 Walker A/P-loop; other site 869307006292 ATP binding site [chemical binding]; other site 869307006293 Q-loop/lid; other site 869307006294 ABC transporter signature motif; other site 869307006295 Walker B; other site 869307006296 D-loop; other site 869307006297 H-loop/switch region; other site 869307006298 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 869307006299 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 869307006300 Helix-turn-helix domain; Region: HTH_25; pfam13413 869307006301 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 869307006302 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 869307006303 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 869307006304 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 869307006305 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 869307006306 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 869307006307 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 869307006308 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 869307006309 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 869307006310 Walker A/P-loop; other site 869307006311 ATP binding site [chemical binding]; other site 869307006312 Q-loop/lid; other site 869307006313 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 869307006314 ABC transporter signature motif; other site 869307006315 Walker B; other site 869307006316 D-loop; other site 869307006317 H-loop/switch region; other site 869307006318 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 869307006319 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 869307006320 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 869307006321 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 869307006322 active site 869307006323 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 869307006324 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 869307006325 active site 869307006326 HIGH motif; other site 869307006327 dimer interface [polypeptide binding]; other site 869307006328 KMSKS motif; other site 869307006329 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 869307006330 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307006331 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307006332 ABC transporter; Region: ABC_tran_2; pfam12848 869307006333 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 869307006334 Predicted membrane protein [Function unknown]; Region: COG4485 869307006335 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 869307006336 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 869307006337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 869307006338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 869307006339 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 869307006340 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 869307006341 active site 869307006342 phosphorylation site [posttranslational modification] 869307006343 intermolecular recognition site; other site 869307006344 dimerization interface [polypeptide binding]; other site 869307006345 LytTr DNA-binding domain; Region: LytTR; pfam04397 869307006346 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 869307006347 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 869307006348 COMC family; Region: ComC; pfam03047 869307006349 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 869307006350 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 869307006351 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 869307006352 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 869307006353 protein binding site [polypeptide binding]; other site 869307006354 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 869307006355 ParB-like nuclease domain; Region: ParBc; pfam02195 869307006356 KorB domain; Region: KorB; pfam08535