-- dump date 20140620_071020 -- class Genbank::misc_feature -- table misc_feature_note -- id note 343509000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 343509000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 343509000003 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 343509000004 Walker A motif; other site 343509000005 ATP binding site [chemical binding]; other site 343509000006 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 343509000007 Walker B motif; other site 343509000008 arginine finger; other site 343509000009 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 343509000010 DnaA box-binding interface [nucleotide binding]; other site 343509000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 343509000012 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 343509000013 putative DNA binding surface [nucleotide binding]; other site 343509000014 dimer interface [polypeptide binding]; other site 343509000015 beta-clamp/clamp loader binding surface; other site 343509000016 beta-clamp/translesion DNA polymerase binding surface; other site 343509000017 recF protein; Region: recf; TIGR00611 343509000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509000019 Walker A/P-loop; other site 343509000020 ATP binding site [chemical binding]; other site 343509000021 Q-loop/lid; other site 343509000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509000023 ABC transporter signature motif; other site 343509000024 Walker B; other site 343509000025 D-loop; other site 343509000026 H-loop/switch region; other site 343509000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 343509000028 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 343509000029 Mg2+ binding site [ion binding]; other site 343509000030 G-X-G motif; other site 343509000031 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 343509000032 anchoring element; other site 343509000033 dimer interface [polypeptide binding]; other site 343509000034 ATP binding site [chemical binding]; other site 343509000035 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 343509000036 active site 343509000037 putative metal-binding site [ion binding]; other site 343509000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 343509000039 Transcriptional regulators [Transcription]; Region: FadR; COG2186 343509000040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509000041 DNA-binding site [nucleotide binding]; DNA binding site 343509000042 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 343509000043 Invasion plasmid antigen IpaD; Region: IpaD; cl05827 343509000044 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509000045 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509000046 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 343509000047 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 343509000048 putative dimer interface [polypeptide binding]; other site 343509000049 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 343509000050 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 343509000051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509000052 homodimer interface [polypeptide binding]; other site 343509000053 catalytic residue [active] 343509000054 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 343509000055 Domain of unknown function DUF20; Region: UPF0118; pfam01594 343509000056 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 343509000057 dimer interface [polypeptide binding]; other site 343509000058 motif 1; other site 343509000059 active site 343509000060 motif 2; other site 343509000061 motif 3; other site 343509000062 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 343509000063 DALR anticodon binding domain; Region: DALR_1; pfam05746 343509000064 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 343509000065 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 343509000066 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 343509000067 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 343509000068 active site 343509000069 P-loop; other site 343509000070 phosphorylation site [posttranslational modification] 343509000071 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 343509000072 active site 343509000073 phosphorylation site [posttranslational modification] 343509000074 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 343509000075 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 343509000076 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 343509000077 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 343509000078 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 343509000079 superoxide dismutase; Provisional; Region: PRK10925 343509000080 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 343509000081 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 343509000082 Nitroreductase-like family 4. 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_4; cd02140 343509000083 dimer interface [polypeptide binding]; other site 343509000084 FMN binding site [chemical binding]; other site 343509000085 drug efflux system protein MdtG; Provisional; Region: PRK09874 343509000086 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 343509000087 putative substrate translocation pore; other site 343509000088 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 343509000089 MarR family; Region: MarR; pfam01047 343509000090 transcriptional activator FlhD; Provisional; Region: PRK02909 343509000091 transcriptional activator FlhC; Provisional; Region: PRK12722 343509000092 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 343509000093 flagellar motor protein MotA; Validated; Region: PRK09110 343509000094 flagellar motor protein MotB; Validated; Region: motB; PRK09041 343509000095 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 343509000096 ligand binding site [chemical binding]; other site 343509000097 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 343509000098 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 343509000099 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 343509000100 FHIPEP family; Region: FHIPEP; pfam00771 343509000101 FlgN protein; Region: FlgN; pfam05130 343509000102 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 343509000103 SAF-like; Region: SAF_2; pfam13144 343509000104 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 343509000105 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 343509000106 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 343509000107 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 343509000108 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 343509000109 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 343509000110 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 343509000111 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 343509000112 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 343509000113 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 343509000114 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 343509000115 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 343509000116 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 343509000117 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 343509000118 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 343509000119 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 343509000120 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 343509000121 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 343509000122 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 343509000123 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 343509000124 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 343509000125 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 343509000126 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 343509000127 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 343509000128 Rod binding protein; Region: Rod-binding; cl01626 343509000129 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 343509000130 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 343509000131 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 343509000132 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 343509000133 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 343509000134 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 343509000135 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 343509000136 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 343509000137 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 343509000138 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 343509000139 Flagellar motor switch protein FliM; Region: FliM; pfam02154 343509000140 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 343509000141 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 343509000142 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 343509000143 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 343509000144 Flagellar FliJ protein; Region: FliJ; pfam02050 343509000145 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 343509000146 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 343509000147 Walker A motif/ATP binding site; other site 343509000148 Walker B motif; other site 343509000149 flagellar assembly protein H; Validated; Region: fliH; PRK05687 343509000150 Flagellar assembly protein FliH; Region: FliH; pfam02108 343509000151 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 343509000152 FliG C-terminal domain; Region: FliG_C; pfam01706 343509000153 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 343509000154 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 343509000155 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 343509000156 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 343509000157 Flagellar protein FliT; Region: FliT; pfam05400 343509000158 flagellar protein FliS; Validated; Region: fliS; PRK05685 343509000159 flagellar capping protein; Reviewed; Region: fliD; PRK08032 343509000160 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 343509000161 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 343509000162 flagellin; Validated; Region: PRK06819 343509000163 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 343509000164 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 343509000165 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 343509000166 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 343509000167 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 343509000168 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 343509000169 DNA binding residues [nucleotide binding] 343509000170 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 343509000171 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 343509000172 peptide binding site [polypeptide binding]; other site 343509000173 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 343509000174 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 343509000175 dimer interface [polypeptide binding]; other site 343509000176 conserved gate region; other site 343509000177 putative PBP binding loops; other site 343509000178 ABC-ATPase subunit interface; other site 343509000179 dipeptide transporter; Provisional; Region: PRK10913 343509000180 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 343509000181 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 343509000182 putative PBP binding loops; other site 343509000183 dimer interface [polypeptide binding]; other site 343509000184 ABC-ATPase subunit interface; other site 343509000185 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 343509000186 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509000187 Walker A/P-loop; other site 343509000188 ATP binding site [chemical binding]; other site 343509000189 Q-loop/lid; other site 343509000190 ABC transporter signature motif; other site 343509000191 Walker B; other site 343509000192 D-loop; other site 343509000193 H-loop/switch region; other site 343509000194 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 343509000195 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 343509000196 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509000197 Walker A/P-loop; other site 343509000198 ATP binding site [chemical binding]; other site 343509000199 Q-loop/lid; other site 343509000200 ABC transporter signature motif; other site 343509000201 Walker B; other site 343509000202 D-loop; other site 343509000203 H-loop/switch region; other site 343509000204 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 343509000205 PAS fold; Region: PAS_4; pfam08448 343509000206 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; cl01054 343509000207 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 343509000208 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 343509000209 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 343509000210 substrate binding site [chemical binding]; other site 343509000211 ATP binding site [chemical binding]; other site 343509000212 glutathione reductase; Validated; Region: PRK06116 343509000213 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 343509000214 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 343509000215 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 343509000216 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 343509000217 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509000218 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 343509000219 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 343509000220 Na binding site [ion binding]; other site 343509000221 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 343509000222 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509000223 oligopeptidase A; Provisional; Region: PRK10911 343509000224 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 343509000225 active site 343509000226 Zn binding site [ion binding]; other site 343509000227 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 343509000228 Ligand Binding Site [chemical binding]; other site 343509000229 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 343509000230 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 343509000231 salicylate hydroxylase; Provisional; Region: PRK08163 343509000232 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 343509000233 hypothetical protein; Provisional; Region: PRK11615 343509000234 hypothetical protein; Provisional; Region: PRK11212 343509000235 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 343509000236 CPxP motif; other site 343509000237 Predicted membrane protein [Function unknown]; Region: COG3714 343509000238 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 343509000239 hypothetical protein; Provisional; Region: PRK10910 343509000240 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 343509000241 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 343509000242 S-adenosylmethionine binding site [chemical binding]; other site 343509000243 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 343509000244 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 343509000245 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 343509000246 P loop; other site 343509000247 GTP binding site [chemical binding]; other site 343509000248 cell division protein FtsE; Provisional; Region: PRK10908 343509000249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509000250 Walker A/P-loop; other site 343509000251 ATP binding site [chemical binding]; other site 343509000252 Q-loop/lid; other site 343509000253 ABC transporter signature motif; other site 343509000254 Walker B; other site 343509000255 D-loop; other site 343509000256 H-loop/switch region; other site 343509000257 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 343509000258 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 343509000259 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 343509000260 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 343509000261 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 343509000262 DNA binding residues [nucleotide binding] 343509000263 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 343509000264 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 343509000265 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 343509000266 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 343509000267 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 343509000268 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 343509000269 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 343509000270 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 343509000271 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 343509000272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509000273 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 343509000274 putative dimerization interface [polypeptide binding]; other site 343509000275 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 343509000276 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 343509000277 THF binding site; other site 343509000278 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 343509000279 substrate binding site [chemical binding]; other site 343509000280 THF binding site; other site 343509000281 zinc-binding site [ion binding]; other site 343509000282 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509000283 catalytic residues [active] 343509000284 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509000285 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 343509000286 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509000287 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509000288 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509000289 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509000290 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 343509000291 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 343509000292 amidase catalytic site [active] 343509000293 Zn binding residues [ion binding]; other site 343509000294 substrate binding site [chemical binding]; other site 343509000295 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 343509000296 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 343509000297 active site 343509000298 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 343509000299 Phage minor tail protein L; Region: Phage_tail_L; cl01908 343509000300 uridine phosphorylase; Provisional; Region: PRK11178 343509000301 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 343509000302 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 343509000303 RmuC family; Region: RmuC; pfam02646 343509000304 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 343509000305 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 343509000306 S-adenosylmethionine binding site [chemical binding]; other site 343509000307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 343509000308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 343509000309 SCP-2 sterol transfer family; Region: SCP2; pfam02036 343509000310 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 343509000311 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 343509000312 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 343509000313 sec-independent translocase; Provisional; Region: PRK01770 343509000314 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 343509000315 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 343509000316 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 343509000317 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 343509000318 FMN reductase; Validated; Region: fre; PRK08051 343509000319 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 343509000320 FAD binding pocket [chemical binding]; other site 343509000321 FAD binding motif [chemical binding]; other site 343509000322 phosphate binding motif [ion binding]; other site 343509000323 beta-alpha-beta structure motif; other site 343509000324 NAD binding pocket [chemical binding]; other site 343509000325 proline dipeptidase; Provisional; Region: PRK13607 343509000326 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 343509000327 active site 343509000328 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 343509000329 potassium transporter; Provisional; Region: PRK10750 343509000330 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 343509000331 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 343509000332 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 343509000333 FAD binding domain; Region: FAD_binding_4; pfam01565 343509000334 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 343509000335 Biotin operon repressor [Transcription]; Region: BirA; COG1654 343509000336 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 343509000337 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 343509000338 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 343509000339 pantothenate kinase; Provisional; Region: PRK05439 343509000340 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 343509000341 ATP-binding site [chemical binding]; other site 343509000342 CoA-binding site [chemical binding]; other site 343509000343 Mg2+-binding site [ion binding]; other site 343509000344 elongation factor Tu; Reviewed; Region: PRK00049 343509000345 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 343509000346 G1 box; other site 343509000347 GEF interaction site [polypeptide binding]; other site 343509000348 GTP/Mg2+ binding site [chemical binding]; other site 343509000349 Switch I region; other site 343509000350 G2 box; other site 343509000351 G3 box; other site 343509000352 Switch II region; other site 343509000353 G4 box; other site 343509000354 G5 box; other site 343509000355 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 343509000356 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 343509000357 Antibiotic Binding Site [chemical binding]; other site 343509000358 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 343509000359 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 343509000360 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 343509000361 putative homodimer interface [polypeptide binding]; other site 343509000362 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 343509000363 heterodimer interface [polypeptide binding]; other site 343509000364 homodimer interface [polypeptide binding]; other site 343509000365 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 343509000366 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 343509000367 23S rRNA interface [nucleotide binding]; other site 343509000368 L7/L12 interface [polypeptide binding]; other site 343509000369 putative thiostrepton binding site; other site 343509000370 L25 interface [polypeptide binding]; other site 343509000371 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 343509000372 mRNA/rRNA interface [nucleotide binding]; other site 343509000373 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 343509000374 23S rRNA interface [nucleotide binding]; other site 343509000375 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 343509000376 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 343509000377 core dimer interface [polypeptide binding]; other site 343509000378 peripheral dimer interface [polypeptide binding]; other site 343509000379 L10 interface [polypeptide binding]; other site 343509000380 L11 interface [polypeptide binding]; other site 343509000381 putative EF-Tu interaction site [polypeptide binding]; other site 343509000382 putative EF-G interaction site [polypeptide binding]; other site 343509000383 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 343509000384 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 343509000385 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 343509000386 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 343509000387 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 343509000388 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 343509000389 RPB3 interaction site [polypeptide binding]; other site 343509000390 RPB1 interaction site [polypeptide binding]; other site 343509000391 RPB11 interaction site [polypeptide binding]; other site 343509000392 RPB10 interaction site [polypeptide binding]; other site 343509000393 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 343509000394 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 343509000395 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 343509000396 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 343509000397 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 343509000398 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 343509000399 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 343509000400 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 343509000401 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 343509000402 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 343509000403 DNA binding site [nucleotide binding] 343509000404 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 343509000405 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 343509000406 Radical SAM superfamily; Region: Radical_SAM; pfam04055 343509000407 FeS/SAM binding site; other site 343509000408 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 343509000409 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 343509000410 substrate binding site [chemical binding]; other site 343509000411 active site 343509000412 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 343509000413 Active_site [active] 343509000414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 343509000415 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 343509000416 IHF dimer interface [polypeptide binding]; other site 343509000417 IHF - DNA interface [nucleotide binding]; other site 343509000418 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 343509000419 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 343509000420 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 343509000421 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 343509000422 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 343509000423 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 343509000424 purine monophosphate binding site [chemical binding]; other site 343509000425 dimer interface [polypeptide binding]; other site 343509000426 putative catalytic residues [active] 343509000427 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 343509000428 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 343509000429 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 343509000430 nucleotide binding site [chemical binding]; other site 343509000431 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 343509000432 DNA-binding site [nucleotide binding]; DNA binding site 343509000433 RNA-binding motif; other site 343509000434 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 343509000435 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509000436 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509000437 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 343509000438 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 343509000439 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 343509000440 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 343509000441 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 343509000442 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 343509000443 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 343509000444 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 343509000445 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 343509000446 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 343509000447 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 343509000448 carboxyltransferase (CT) interaction site; other site 343509000449 biotinylation site [posttranslational modification]; other site 343509000450 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 343509000451 Dehydroquinase class II; Region: DHquinase_II; pfam01220 343509000452 active site 343509000453 trimer interface [polypeptide binding]; other site 343509000454 dimer interface [polypeptide binding]; other site 343509000455 regulatory protein CsrD; Provisional; Region: PRK11059 343509000456 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 343509000457 metal binding site [ion binding]; metal-binding site 343509000458 active site 343509000459 I-site; other site 343509000460 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 343509000461 rod shape-determining protein MreB; Provisional; Region: PRK13927 343509000462 MreB and similar proteins; Region: MreB_like; cd10225 343509000463 nucleotide binding site [chemical binding]; other site 343509000464 Mg binding site [ion binding]; other site 343509000465 putative protofilament interaction site [polypeptide binding]; other site 343509000466 RodZ interaction site [polypeptide binding]; other site 343509000467 rod shape-determining protein MreC; Region: mreC; TIGR00219 343509000468 rod shape-determining protein MreC; Region: MreC; pfam04085 343509000469 rod shape-determining protein MreD; Provisional; Region: PRK11060 343509000470 ribonuclease G; Provisional; Region: PRK11712 343509000471 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 343509000472 homodimer interface [polypeptide binding]; other site 343509000473 oligonucleotide binding site [chemical binding]; other site 343509000474 hypothetical protein; Provisional; Region: PRK10899 343509000475 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 343509000476 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 343509000477 transcriptional regulator; Provisional; Region: PRK10632 343509000478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509000479 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 343509000480 putative effector binding pocket; other site 343509000481 dimerization interface [polypeptide binding]; other site 343509000482 efflux system membrane protein; Provisional; Region: PRK11594 343509000483 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 343509000484 NAD(P) binding site [chemical binding]; other site 343509000485 catalytic residues [active] 343509000486 hypothetical protein; Provisional; Region: PRK05255 343509000487 Cytochrome b562; Region: Cytochrom_B562; cl01546 343509000488 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 343509000489 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 343509000490 Domain of unknown function (DUF718); Region: DUF718; pfam05336 343509000491 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 343509000492 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 343509000493 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 343509000494 CoA-transferase family III; Region: CoA_transf_3; pfam02515 343509000495 Transcriptional regulators [Transcription]; Region: FadR; COG2186 343509000496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509000497 DNA-binding site [nucleotide binding]; DNA binding site 343509000498 FCD domain; Region: FCD; cl11656 343509000499 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 343509000500 Spore germination protein; Region: Spore_permease; cl17796 343509000501 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 343509000502 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 343509000503 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 343509000504 NAD(P) binding site [chemical binding]; other site 343509000505 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 343509000506 putative ligand binding site [chemical binding]; other site 343509000507 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 343509000508 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 343509000509 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509000510 DNA-binding site [nucleotide binding]; DNA binding site 343509000511 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 343509000512 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 343509000513 L-fuculokinase; Provisional; Region: PRK10331 343509000514 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 343509000515 nucleotide binding site [chemical binding]; other site 343509000516 L-fucose isomerase; Provisional; Region: fucI; PRK10991 343509000517 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 343509000518 hexamer (dimer of trimers) interface [polypeptide binding]; other site 343509000519 trimer interface [polypeptide binding]; other site 343509000520 substrate binding site [chemical binding]; other site 343509000521 Mn binding site [ion binding]; other site 343509000522 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 343509000523 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 343509000524 putative substrate translocation pore; other site 343509000525 L-fuculose phosphate aldolase; Provisional; Region: PRK08087 343509000526 intersubunit interface [polypeptide binding]; other site 343509000527 active site 343509000528 Zn2+ binding site [ion binding]; other site 343509000529 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 343509000530 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 343509000531 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 343509000532 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 343509000533 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 343509000534 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 343509000535 ABC-ATPase subunit interface; other site 343509000536 dimer interface [polypeptide binding]; other site 343509000537 putative PBP binding regions; other site 343509000538 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 343509000539 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 343509000540 metal binding site [ion binding]; metal-binding site 343509000541 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 343509000542 hypothetical protein; Provisional; Region: PRK03467 343509000543 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 343509000544 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 343509000545 dimerization domain swap beta strand [polypeptide binding]; other site 343509000546 regulatory protein interface [polypeptide binding]; other site 343509000547 active site 343509000548 regulatory phosphorylation site [posttranslational modification]; other site 343509000549 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 343509000550 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 343509000551 active site 343509000552 phosphorylation site [posttranslational modification] 343509000553 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 343509000554 30S subunit binding site; other site 343509000555 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 343509000556 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 343509000557 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 343509000558 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 343509000559 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 343509000560 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 343509000561 Walker A/P-loop; other site 343509000562 ATP binding site [chemical binding]; other site 343509000563 Q-loop/lid; other site 343509000564 ABC transporter signature motif; other site 343509000565 Walker B; other site 343509000566 D-loop; other site 343509000567 H-loop/switch region; other site 343509000568 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 343509000569 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 343509000570 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 343509000571 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 343509000572 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 343509000573 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 343509000574 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 343509000575 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 343509000576 putative active site [active] 343509000577 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 343509000578 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 343509000579 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 343509000580 Walker A/P-loop; other site 343509000581 ATP binding site [chemical binding]; other site 343509000582 Q-loop/lid; other site 343509000583 ABC transporter signature motif; other site 343509000584 Walker B; other site 343509000585 D-loop; other site 343509000586 H-loop/switch region; other site 343509000587 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 343509000588 Permease; Region: Permease; cl00510 343509000589 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 343509000590 mce related protein; Region: MCE; pfam02470 343509000591 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 343509000592 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 343509000593 anti sigma factor interaction site; other site 343509000594 regulatory phosphorylation site [posttranslational modification]; other site 343509000595 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 343509000596 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 343509000597 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 343509000598 hinge; other site 343509000599 active site 343509000600 serine endoprotease; Provisional; Region: PRK10898 343509000601 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 343509000602 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 343509000603 serine endoprotease; Provisional; Region: PRK10139 343509000604 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 343509000605 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 343509000606 protein binding site [polypeptide binding]; other site 343509000607 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 343509000608 hypothetical protein; Provisional; Region: PRK11677 343509000609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 343509000610 Predicted ATPase [General function prediction only]; Region: COG1485 343509000611 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 343509000612 23S rRNA interface [nucleotide binding]; other site 343509000613 L3 interface [polypeptide binding]; other site 343509000614 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 343509000615 stringent starvation protein A; Provisional; Region: sspA; PRK09481 343509000616 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 343509000617 C-terminal domain interface [polypeptide binding]; other site 343509000618 putative GSH binding site (G-site) [chemical binding]; other site 343509000619 dimer interface [polypeptide binding]; other site 343509000620 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 343509000621 dimer interface [polypeptide binding]; other site 343509000622 N-terminal domain interface [polypeptide binding]; other site 343509000623 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 343509000624 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 343509000625 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 343509000626 putative active site [active] 343509000627 heme pocket [chemical binding]; other site 343509000628 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 343509000629 dimer interface [polypeptide binding]; other site 343509000630 phosphorylation site [posttranslational modification] 343509000631 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 343509000632 ATP binding site [chemical binding]; other site 343509000633 Mg2+ binding site [ion binding]; other site 343509000634 G-X-G motif; other site 343509000635 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 343509000636 active site 343509000637 phosphorylation site [posttranslational modification] 343509000638 intermolecular recognition site; other site 343509000639 dimerization interface [polypeptide binding]; other site 343509000640 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 343509000641 putative binding surface; other site 343509000642 active site 343509000643 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 343509000644 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 343509000645 conserved cys residue [active] 343509000646 Transglycosylase; Region: Transgly; cl17702 343509000647 outer membrane lipoprotein; Provisional; Region: PRK11023 343509000648 BON domain; Region: BON; pfam04972 343509000649 BON domain; Region: BON; pfam04972 343509000650 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 343509000651 dimer interface [polypeptide binding]; other site 343509000652 active site 343509000653 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 343509000654 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 343509000655 putative ligand binding site [chemical binding]; other site 343509000656 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 343509000657 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 343509000658 putative SAM binding site [chemical binding]; other site 343509000659 putative homodimer interface [polypeptide binding]; other site 343509000660 Pirin; Region: Pirin; pfam02678 343509000661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509000662 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; cl11398 343509000663 dimerization interface [polypeptide binding]; other site 343509000664 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 343509000665 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509000666 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 343509000667 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 343509000668 Protein of unknown function (DUF969); Region: DUF969; pfam06149 343509000669 Predicted membrane protein [Function unknown]; Region: COG3817 343509000670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509000671 DNA-binding site [nucleotide binding]; DNA binding site 343509000672 FCD domain; Region: FCD; pfam07729 343509000673 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 343509000674 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 343509000675 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 343509000676 Predicted transcriptional regulator [Transcription]; Region: COG2932 343509000677 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 343509000678 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 343509000679 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 343509000680 O-Antigen ligase; Region: Wzy_C; pfam04932 343509000681 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 343509000682 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509000683 DNA-binding site [nucleotide binding]; DNA binding site 343509000684 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 343509000685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509000686 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509000687 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509000688 Phage-related protein [Function unknown]; Region: COG4695; cl01923 343509000689 Phage portal protein; Region: Phage_portal; pfam04860 343509000690 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 343509000691 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 343509000692 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 343509000693 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 343509000694 ArsC family; Region: ArsC; pfam03960 343509000695 catalytic residues [active] 343509000696 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 343509000697 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 343509000698 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 343509000699 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 343509000700 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 343509000701 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 343509000702 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 343509000703 DNA binding residues [nucleotide binding] 343509000704 DNA primase; Validated; Region: dnaG; PRK05667 343509000705 CHC2 zinc finger; Region: zf-CHC2; pfam01807 343509000706 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 343509000707 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 343509000708 active site 343509000709 metal binding site [ion binding]; metal-binding site 343509000710 interdomain interaction site; other site 343509000711 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 343509000712 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 343509000713 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 343509000714 UGMP family protein; Validated; Region: PRK09604 343509000715 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 343509000716 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 343509000717 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 343509000718 homooctamer interface [polypeptide binding]; other site 343509000719 active site 343509000720 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 343509000721 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 343509000722 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 343509000723 active site 343509000724 NTP binding site [chemical binding]; other site 343509000725 metal binding triad [ion binding]; metal-binding site 343509000726 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 343509000727 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 343509000728 Zn2+ binding site [ion binding]; other site 343509000729 Mg2+ binding site [ion binding]; other site 343509000730 SH3 domain-containing protein; Provisional; Region: PRK10884 343509000731 Bacterial SH3 domain homologues; Region: SH3b; smart00287 343509000732 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 343509000733 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 343509000734 metal binding triad; other site 343509000735 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 343509000736 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 343509000737 metal binding triad; other site 343509000738 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 343509000739 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 343509000740 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 343509000741 putative ribose interaction site [chemical binding]; other site 343509000742 putative ADP binding site [chemical binding]; other site 343509000743 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 343509000744 active site 343509000745 nucleotide binding site [chemical binding]; other site 343509000746 HIGH motif; other site 343509000747 KMSKS motif; other site 343509000748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 343509000749 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 343509000750 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 343509000751 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 343509000752 hypothetical protein; Provisional; Region: PRK11653 343509000753 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 343509000754 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 343509000755 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 343509000756 dimer interface [polypeptide binding]; other site 343509000757 ADP-ribose binding site [chemical binding]; other site 343509000758 active site 343509000759 nudix motif; other site 343509000760 metal binding site [ion binding]; metal-binding site 343509000761 putative dehydrogenase; Provisional; Region: PRK11039 343509000762 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 343509000763 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 343509000764 active site 343509000765 metal binding site [ion binding]; metal-binding site 343509000766 hexamer interface [polypeptide binding]; other site 343509000767 esterase YqiA; Provisional; Region: PRK11071 343509000768 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 343509000769 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 343509000770 ATP binding site [chemical binding]; other site 343509000771 Mg2+ binding site [ion binding]; other site 343509000772 G-X-G motif; other site 343509000773 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 343509000774 anchoring element; other site 343509000775 dimer interface [polypeptide binding]; other site 343509000776 ATP binding site [chemical binding]; other site 343509000777 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 343509000778 active site 343509000779 metal binding site [ion binding]; metal-binding site 343509000780 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 343509000781 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 343509000782 intersubunit interface [polypeptide binding]; other site 343509000783 active site 343509000784 Zn2+ binding site [ion binding]; other site 343509000785 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 343509000786 Cupin domain; Region: Cupin_2; cl17218 343509000787 Uncharacterized conserved protein [Function unknown]; Region: COG1359 343509000788 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 343509000789 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 343509000790 CAP-like domain; other site 343509000791 active site 343509000792 primary dimer interface [polypeptide binding]; other site 343509000793 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 343509000794 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 343509000795 putative acyl-acceptor binding pocket; other site 343509000796 FtsI repressor; Provisional; Region: PRK10883 343509000797 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 343509000798 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 343509000799 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 343509000800 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 343509000801 catalytic tetrad [active] 343509000802 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 343509000803 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 343509000804 cystathionine beta-lyase; Provisional; Region: PRK08114 343509000805 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 343509000806 homodimer interface [polypeptide binding]; other site 343509000807 substrate-cofactor binding pocket; other site 343509000808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509000809 catalytic residue [active] 343509000810 biopolymer transport protein ExbB; Provisional; Region: PRK10414 343509000811 biopolymer transport protein ExbD; Provisional; Region: PRK11267 343509000812 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 343509000813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 343509000814 NAD(P) binding site [chemical binding]; other site 343509000815 Autoinducer synthetase; Region: Autoind_synth; cl17404 343509000816 Autoinducer binding domain; Region: Autoind_bind; pfam03472 343509000817 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 343509000818 DNA binding residues [nucleotide binding] 343509000819 dimerization interface [polypeptide binding]; other site 343509000820 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 343509000821 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509000822 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509000823 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 343509000824 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 343509000825 dimerization interface [polypeptide binding]; other site 343509000826 ligand binding site [chemical binding]; other site 343509000827 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509000828 Walker A/P-loop; other site 343509000829 ATP binding site [chemical binding]; other site 343509000830 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 343509000831 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 343509000832 Ligand binding site; other site 343509000833 Putative Catalytic site; other site 343509000834 DXD motif; other site 343509000835 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 343509000836 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 343509000837 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 343509000838 dimer interface [polypeptide binding]; other site 343509000839 conserved gate region; other site 343509000840 putative PBP binding loops; other site 343509000841 ABC-ATPase subunit interface; other site 343509000842 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 343509000843 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 343509000844 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509000845 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509000846 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 343509000847 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 343509000848 sequence-specific DNA binding site [nucleotide binding]; other site 343509000849 salt bridge; other site 343509000850 Predicted transcriptional regulator [Transcription]; Region: COG2932 343509000851 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 343509000852 Catalytic site [active] 343509000853 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509000854 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 343509000855 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 343509000856 Ligand binding site; other site 343509000857 Putative Catalytic site; other site 343509000858 DXD motif; other site 343509000859 putative transcriptional regulator; Provisional; Region: PRK11640 343509000860 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 343509000861 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 343509000862 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 343509000863 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 343509000864 DsbD alpha interface [polypeptide binding]; other site 343509000865 catalytic residues [active] 343509000866 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 343509000867 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 343509000868 Lyase; Region: Lyase_1; pfam00206 343509000869 tetramer interface [polypeptide binding]; other site 343509000870 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 343509000871 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 343509000872 oligomerisation interface [polypeptide binding]; other site 343509000873 mobile loop; other site 343509000874 roof hairpin; other site 343509000875 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 343509000876 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 343509000877 ring oligomerisation interface [polypeptide binding]; other site 343509000878 ATP/Mg binding site [chemical binding]; other site 343509000879 stacking interactions; other site 343509000880 hinge regions; other site 343509000881 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 343509000882 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 343509000883 lysine-2,3-aminomutase-like protein; Region: AblA_like_1; TIGR03821 343509000884 FeS/SAM binding site; other site 343509000885 elongation factor P; Validated; Region: PRK00529 343509000886 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 343509000887 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 343509000888 RNA binding site [nucleotide binding]; other site 343509000889 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 343509000890 RNA binding site [nucleotide binding]; other site 343509000891 poxB regulator PoxA; Provisional; Region: PRK09350 343509000892 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 343509000893 motif 1; other site 343509000894 dimer interface [polypeptide binding]; other site 343509000895 active site 343509000896 motif 2; other site 343509000897 motif 3; other site 343509000898 putative mechanosensitive channel protein; Provisional; Region: PRK10929 343509000899 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 343509000900 Mechanosensitive ion channel; Region: MS_channel; pfam00924 343509000901 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 343509000902 GTPase RsgA; Reviewed; Region: PRK12288 343509000903 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 343509000904 RNA binding site [nucleotide binding]; other site 343509000905 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 343509000906 GTPase/Zn-binding domain interface [polypeptide binding]; other site 343509000907 GTP/Mg2+ binding site [chemical binding]; other site 343509000908 G4 box; other site 343509000909 G5 box; other site 343509000910 G1 box; other site 343509000911 Switch I region; other site 343509000912 G2 box; other site 343509000913 G3 box; other site 343509000914 Switch II region; other site 343509000915 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 343509000916 catalytic site [active] 343509000917 putative active site [active] 343509000918 putative substrate binding site [chemical binding]; other site 343509000919 dimer interface [polypeptide binding]; other site 343509000920 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 343509000921 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 343509000922 metal binding site [ion binding]; metal-binding site 343509000923 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 343509000924 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 343509000925 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 343509000926 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 343509000927 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 343509000928 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 343509000929 active site 343509000930 phosphorylation site [posttranslational modification] 343509000931 intermolecular recognition site; other site 343509000932 dimerization interface [polypeptide binding]; other site 343509000933 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 343509000934 DNA binding site [nucleotide binding] 343509000935 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 343509000936 FAD binding pocket [chemical binding]; other site 343509000937 FAD binding motif [chemical binding]; other site 343509000938 phosphate binding motif [ion binding]; other site 343509000939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 343509000940 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 343509000941 NAD(P) binding site [chemical binding]; other site 343509000942 active site 343509000943 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 343509000944 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 343509000945 NADP-binding site; other site 343509000946 homotetramer interface [polypeptide binding]; other site 343509000947 substrate binding site [chemical binding]; other site 343509000948 homodimer interface [polypeptide binding]; other site 343509000949 active site 343509000950 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 343509000951 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 343509000952 AMIN domain; Region: AMIN; pfam11741 343509000953 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 343509000954 active site 343509000955 metal binding site [ion binding]; metal-binding site 343509000956 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 343509000957 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 343509000958 ATP binding site [chemical binding]; other site 343509000959 Mg2+ binding site [ion binding]; other site 343509000960 G-X-G motif; other site 343509000961 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 343509000962 ATP binding site [chemical binding]; other site 343509000963 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 343509000964 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 343509000965 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 343509000966 Walker A motif; other site 343509000967 ATP binding site [chemical binding]; other site 343509000968 bacterial Hfq-like; Region: Hfq; cd01716 343509000969 hexamer interface [polypeptide binding]; other site 343509000970 Sm1 motif; other site 343509000971 RNA binding site [nucleotide binding]; other site 343509000972 Sm2 motif; other site 343509000973 GTPase HflX; Provisional; Region: PRK11058 343509000974 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 343509000975 HflX GTPase family; Region: HflX; cd01878 343509000976 G1 box; other site 343509000977 GTP/Mg2+ binding site [chemical binding]; other site 343509000978 Switch I region; other site 343509000979 G2 box; other site 343509000980 G3 box; other site 343509000981 Switch II region; other site 343509000982 G4 box; other site 343509000983 G5 box; other site 343509000984 FtsH protease regulator HflK; Provisional; Region: PRK10930 343509000985 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 343509000986 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 343509000987 FtsH protease regulator HflC; Provisional; Region: PRK11029 343509000988 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 343509000989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 343509000990 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 343509000991 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 343509000992 GDP-binding site [chemical binding]; other site 343509000993 ACT binding site; other site 343509000994 IMP binding site; other site 343509000995 exoribonuclease R; Provisional; Region: PRK11642 343509000996 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 343509000997 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 343509000998 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 343509000999 RNB domain; Region: RNB; pfam00773 343509001000 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 343509001001 RNA binding site [nucleotide binding]; other site 343509001002 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 343509001003 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 343509001004 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 343509001005 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 343509001006 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 343509001007 dimer interface [polypeptide binding]; other site 343509001008 ssDNA binding site [nucleotide binding]; other site 343509001009 tetramer (dimer of dimers) interface [polypeptide binding]; other site 343509001010 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 343509001011 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 343509001012 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 343509001013 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 343509001014 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 343509001015 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 343509001016 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 343509001017 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 343509001018 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 343509001019 active site 343509001020 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 343509001021 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 343509001022 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 343509001023 Surface antigen; Region: Bac_surface_Ag; pfam01103 343509001024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 343509001025 Family of unknown function (DUF490); Region: DUF490; pfam04357 343509001026 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 343509001027 putative active site pocket [active] 343509001028 dimerization interface [polypeptide binding]; other site 343509001029 putative catalytic residue [active] 343509001030 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 343509001031 dimer interface [polypeptide binding]; other site 343509001032 substrate binding site [chemical binding]; other site 343509001033 metal binding sites [ion binding]; metal-binding site 343509001034 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 343509001035 AMP binding site [chemical binding]; other site 343509001036 metal binding site [ion binding]; metal-binding site 343509001037 active site 343509001038 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 343509001039 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 343509001040 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 343509001041 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 343509001042 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 343509001043 arginine repressor; Provisional; Region: PRK05066 343509001044 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 343509001045 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 343509001046 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 343509001047 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 343509001048 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 343509001049 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 343509001050 substrate binding pocket [chemical binding]; other site 343509001051 chain length determination region; other site 343509001052 substrate-Mg2+ binding site; other site 343509001053 catalytic residues [active] 343509001054 aspartate-rich region 1; other site 343509001055 active site lid residues [active] 343509001056 aspartate-rich region 2; other site 343509001057 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 343509001058 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 343509001059 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 343509001060 EamA-like transporter family; Region: EamA; pfam00892 343509001061 GTPase CgtA; Reviewed; Region: obgE; PRK12298 343509001062 GTP1/OBG; Region: GTP1_OBG; pfam01018 343509001063 Obg GTPase; Region: Obg; cd01898 343509001064 G1 box; other site 343509001065 GTP/Mg2+ binding site [chemical binding]; other site 343509001066 Switch I region; other site 343509001067 G2 box; other site 343509001068 G3 box; other site 343509001069 Switch II region; other site 343509001070 G4 box; other site 343509001071 G5 box; other site 343509001072 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 343509001073 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 343509001074 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 343509001075 RNA-binding protein YhbY; Provisional; Region: PRK10343 343509001076 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 343509001077 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 343509001078 S-adenosylmethionine binding site [chemical binding]; other site 343509001079 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 343509001080 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 343509001081 Walker A motif; other site 343509001082 ATP binding site [chemical binding]; other site 343509001083 Walker B motif; other site 343509001084 arginine finger; other site 343509001085 Peptidase family M41; Region: Peptidase_M41; pfam01434 343509001086 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 343509001087 dihydropteroate synthase; Region: DHPS; TIGR01496 343509001088 substrate binding pocket [chemical binding]; other site 343509001089 dimer interface [polypeptide binding]; other site 343509001090 inhibitor binding site; inhibition site 343509001091 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 343509001092 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 343509001093 active site 343509001094 substrate binding site [chemical binding]; other site 343509001095 metal binding site [ion binding]; metal-binding site 343509001096 Preprotein translocase SecG subunit; Region: SecG; pfam03840 343509001097 ribosome maturation protein RimP; Reviewed; Region: PRK00092 343509001098 Sm and related proteins; Region: Sm_like; cl00259 343509001099 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 343509001100 putative oligomer interface [polypeptide binding]; other site 343509001101 putative RNA binding site [nucleotide binding]; other site 343509001102 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 343509001103 NusA N-terminal domain; Region: NusA_N; pfam08529 343509001104 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 343509001105 RNA binding site [nucleotide binding]; other site 343509001106 homodimer interface [polypeptide binding]; other site 343509001107 NusA-like KH domain; Region: KH_5; pfam13184 343509001108 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 343509001109 G-X-X-G motif; other site 343509001110 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 343509001111 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 343509001112 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 343509001113 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 343509001114 translation initiation factor IF-2; Region: IF-2; TIGR00487 343509001115 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 343509001116 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 343509001117 G1 box; other site 343509001118 putative GEF interaction site [polypeptide binding]; other site 343509001119 GTP/Mg2+ binding site [chemical binding]; other site 343509001120 Switch I region; other site 343509001121 G2 box; other site 343509001122 G3 box; other site 343509001123 Switch II region; other site 343509001124 G4 box; other site 343509001125 G5 box; other site 343509001126 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 343509001127 Translation-initiation factor 2; Region: IF-2; pfam11987 343509001128 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 343509001129 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 343509001130 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 343509001131 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 343509001132 RNA binding site [nucleotide binding]; other site 343509001133 active site 343509001134 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 343509001135 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 343509001136 16S/18S rRNA binding site [nucleotide binding]; other site 343509001137 S13e-L30e interaction site [polypeptide binding]; other site 343509001138 25S rRNA binding site [nucleotide binding]; other site 343509001139 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 343509001140 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 343509001141 RNase E interface [polypeptide binding]; other site 343509001142 trimer interface [polypeptide binding]; other site 343509001143 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 343509001144 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 343509001145 RNase E interface [polypeptide binding]; other site 343509001146 trimer interface [polypeptide binding]; other site 343509001147 active site 343509001148 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 343509001149 nucleic acid binding region [nucleotide binding]; other site 343509001150 G-X-X-G motif; other site 343509001151 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 343509001152 RNA binding site [nucleotide binding]; other site 343509001153 domain interface; other site 343509001154 lipoprotein NlpI; Provisional; Region: PRK11189 343509001155 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 343509001156 binding surface 343509001157 TPR motif; other site 343509001158 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 343509001159 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 343509001160 ATP binding site [chemical binding]; other site 343509001161 Mg++ binding site [ion binding]; other site 343509001162 motif III; other site 343509001163 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 343509001164 nucleotide binding region [chemical binding]; other site 343509001165 ATP-binding site [chemical binding]; other site 343509001166 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 343509001167 putative RNA binding site [nucleotide binding]; other site 343509001168 Cold shock protein DEAD box A; Region: DEADboxA; pfam12343 343509001169 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 343509001170 Peptidase family U32; Region: Peptidase_U32; pfam01136 343509001171 SCP-2 sterol transfer family; Region: SCP2; cl01225 343509001172 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 343509001173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509001174 Coenzyme A binding pocket [chemical binding]; other site 343509001175 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 343509001176 GIY-YIG motif/motif A; other site 343509001177 putative active site [active] 343509001178 putative metal binding site [ion binding]; other site 343509001179 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 343509001180 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 343509001181 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 343509001182 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 343509001183 S-adenosylmethionine binding site [chemical binding]; other site 343509001184 DNA polymerase III subunit psi; Validated; Region: PRK06856 343509001185 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 343509001186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509001187 Coenzyme A binding pocket [chemical binding]; other site 343509001188 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 343509001189 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 343509001190 G1 box; other site 343509001191 putative GEF interaction site [polypeptide binding]; other site 343509001192 GTP/Mg2+ binding site [chemical binding]; other site 343509001193 Switch I region; other site 343509001194 G2 box; other site 343509001195 G3 box; other site 343509001196 Switch II region; other site 343509001197 G4 box; other site 343509001198 G5 box; other site 343509001199 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 343509001200 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 343509001201 intersubunit interface [polypeptide binding]; other site 343509001202 active site 343509001203 catalytic residue [active] 343509001204 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 343509001205 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 343509001206 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 343509001207 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 343509001208 phosphopentomutase; Provisional; Region: PRK05362 343509001209 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 343509001210 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 343509001211 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 343509001212 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 343509001213 motif II; other site 343509001214 DNA repair protein RadA; Provisional; Region: PRK11823 343509001215 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 343509001216 Walker A motif/ATP binding site; other site 343509001217 ATP binding site [chemical binding]; other site 343509001218 Walker B motif; other site 343509001219 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 343509001220 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 343509001221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509001222 Walker A/P-loop; other site 343509001223 ATP binding site [chemical binding]; other site 343509001224 Q-loop/lid; other site 343509001225 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509001226 ABC transporter signature motif; other site 343509001227 ABC transporter; Region: ABC_tran_2; pfam12848 343509001228 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509001229 Trp operon repressor; Provisional; Region: PRK01381 343509001230 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 343509001231 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 343509001232 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 343509001233 two-component response regulator; Provisional; Region: PRK11173 343509001234 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 343509001235 active site 343509001236 phosphorylation site [posttranslational modification] 343509001237 intermolecular recognition site; other site 343509001238 dimerization interface [polypeptide binding]; other site 343509001239 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 343509001240 DNA binding site [nucleotide binding] 343509001241 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 343509001242 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 343509001243 putative catalytic residues [active] 343509001244 putative nucleotide binding site [chemical binding]; other site 343509001245 putative aspartate binding site [chemical binding]; other site 343509001246 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 343509001247 dimer interface [polypeptide binding]; other site 343509001248 putative threonine allosteric regulatory site; other site 343509001249 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 343509001250 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 343509001251 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 343509001252 homoserine kinase; Provisional; Region: PRK01212 343509001253 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 343509001254 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 343509001255 threonine synthase; Validated; Region: PRK09225 343509001256 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 343509001257 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509001258 catalytic residue [active] 343509001259 hypothetical protein; Validated; Region: PRK02101 343509001260 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 343509001261 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 343509001262 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 343509001263 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 343509001264 nucleotide binding site [chemical binding]; other site 343509001265 chaperone protein DnaJ; Provisional; Region: PRK10767 343509001266 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 343509001267 HSP70 interaction site [polypeptide binding]; other site 343509001268 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 343509001269 substrate binding site [polypeptide binding]; other site 343509001270 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 343509001271 Zn binding sites [ion binding]; other site 343509001272 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 343509001273 dimer interface [polypeptide binding]; other site 343509001274 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 343509001275 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 343509001276 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 343509001277 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 343509001278 active site 343509001279 Riboflavin kinase; Region: Flavokinase; smart00904 343509001280 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 343509001281 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 343509001282 active site 343509001283 HIGH motif; other site 343509001284 nucleotide binding site [chemical binding]; other site 343509001285 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 343509001286 active site 343509001287 KMSKS motif; other site 343509001288 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 343509001289 tRNA binding surface [nucleotide binding]; other site 343509001290 anticodon binding site; other site 343509001291 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 343509001292 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 343509001293 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 343509001294 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 343509001295 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 343509001296 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 343509001297 dihydrodipicolinate reductase; Provisional; Region: PRK00048 343509001298 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 343509001299 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 343509001300 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 343509001301 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 343509001302 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 343509001303 catalytic site [active] 343509001304 subunit interface [polypeptide binding]; other site 343509001305 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 343509001306 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 343509001307 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 343509001308 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 343509001309 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 343509001310 ATP-grasp domain; Region: ATP-grasp_4; cl17255 343509001311 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 343509001312 IMP binding site; other site 343509001313 dimer interface [polypeptide binding]; other site 343509001314 interdomain contacts; other site 343509001315 partial ornithine binding site; other site 343509001316 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 343509001317 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 343509001318 folate binding site [chemical binding]; other site 343509001319 NADP+ binding site [chemical binding]; other site 343509001320 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 343509001321 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 343509001322 active site 343509001323 metal binding site [ion binding]; metal-binding site 343509001324 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 343509001325 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 343509001326 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 343509001327 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 343509001328 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 343509001329 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 343509001330 SurA N-terminal domain; Region: SurA_N; pfam09312 343509001331 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 343509001332 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 343509001333 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 343509001334 OstA-like protein; Region: OstA; pfam03968 343509001335 Organic solvent tolerance protein; Region: OstA_C; pfam04453 343509001336 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 343509001337 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 343509001338 putative metal binding site [ion binding]; other site 343509001339 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 343509001340 HSP70 interaction site [polypeptide binding]; other site 343509001341 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 343509001342 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 343509001343 active site 343509001344 ATP-dependent helicase HepA; Validated; Region: PRK04914 343509001345 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 343509001346 ATP binding site [chemical binding]; other site 343509001347 putative Mg++ binding site [ion binding]; other site 343509001348 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 343509001349 nucleotide binding region [chemical binding]; other site 343509001350 ATP-binding site [chemical binding]; other site 343509001351 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 343509001352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509001353 Walker A/P-loop; other site 343509001354 ATP binding site [chemical binding]; other site 343509001355 Q-loop/lid; other site 343509001356 ABC transporter signature motif; other site 343509001357 Walker B; other site 343509001358 D-loop; other site 343509001359 H-loop/switch region; other site 343509001360 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 343509001361 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 343509001362 dimer interface [polypeptide binding]; other site 343509001363 conserved gate region; other site 343509001364 putative PBP binding loops; other site 343509001365 ABC-ATPase subunit interface; other site 343509001366 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 343509001367 dimer interface [polypeptide binding]; other site 343509001368 conserved gate region; other site 343509001369 putative PBP binding loops; other site 343509001370 ABC-ATPase subunit interface; other site 343509001371 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 343509001372 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 343509001373 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 343509001374 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 343509001375 substrate binding site [chemical binding]; other site 343509001376 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 343509001377 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 343509001378 substrate binding site [chemical binding]; other site 343509001379 ligand binding site [chemical binding]; other site 343509001380 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 343509001381 tartrate dehydrogenase; Region: TTC; TIGR02089 343509001382 2-isopropylmalate synthase; Validated; Region: PRK00915 343509001383 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 343509001384 active site 343509001385 catalytic residues [active] 343509001386 metal binding site [ion binding]; metal-binding site 343509001387 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 343509001388 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 343509001389 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 343509001390 DNA binding site [nucleotide binding] 343509001391 domain linker motif; other site 343509001392 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 343509001393 dimerization interface [polypeptide binding]; other site 343509001394 ligand binding site [chemical binding]; other site 343509001395 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 343509001396 cell division protein MraZ; Reviewed; Region: PRK00326 343509001397 MraZ protein; Region: MraZ; pfam02381 343509001398 MraZ protein; Region: MraZ; pfam02381 343509001399 MraW methylase family; Region: Methyltransf_5; cl17771 343509001400 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 343509001401 cell division protein FtsL; Provisional; Region: PRK10772 343509001402 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 343509001403 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 343509001404 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 343509001405 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 343509001406 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 343509001407 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 343509001408 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 343509001409 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 343509001410 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 343509001411 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 343509001412 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 343509001413 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 343509001414 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 343509001415 Mg++ binding site [ion binding]; other site 343509001416 putative catalytic motif [active] 343509001417 putative substrate binding site [chemical binding]; other site 343509001418 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 343509001419 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 343509001420 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 343509001421 cell division protein FtsW; Provisional; Region: PRK10774 343509001422 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 343509001423 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 343509001424 active site 343509001425 homodimer interface [polypeptide binding]; other site 343509001426 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 343509001427 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 343509001428 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 343509001429 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 343509001430 cell division protein FtsQ; Provisional; Region: PRK10775 343509001431 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 343509001432 Cell division protein FtsQ; Region: FtsQ; pfam03799 343509001433 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 343509001434 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 343509001435 Cell division protein FtsA; Region: FtsA; pfam14450 343509001436 cell division protein FtsZ; Validated; Region: PRK09330 343509001437 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 343509001438 nucleotide binding site [chemical binding]; other site 343509001439 SulA interaction site; other site 343509001440 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 343509001441 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 343509001442 Protein of unknown function (DUF721); Region: DUF721; cl02324 343509001443 SecA regulator SecM; Provisional; Region: PRK02943 343509001444 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 343509001445 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 343509001446 SEC-C motif; Region: SEC-C; pfam02810 343509001447 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 343509001448 active site 343509001449 8-oxo-dGMP binding site [chemical binding]; other site 343509001450 nudix motif; other site 343509001451 metal binding site [ion binding]; metal-binding site 343509001452 DNA gyrase inhibitor; Reviewed; Region: PRK00418 343509001453 hypothetical protein; Provisional; Region: PRK05287 343509001454 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 343509001455 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 343509001456 CoA-binding site [chemical binding]; other site 343509001457 ATP-binding [chemical binding]; other site 343509001458 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 343509001459 Walker B motif; other site 343509001460 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 343509001461 putative major pilin subunit; Provisional; Region: PRK10574 343509001462 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 343509001463 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 343509001464 dimerization interface [polypeptide binding]; other site 343509001465 active site 343509001466 aromatic amino acid transporter; Provisional; Region: PRK10238 343509001467 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 343509001468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509001469 DNA-binding site [nucleotide binding]; DNA binding site 343509001470 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 343509001471 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 343509001472 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 343509001473 dimer interface [polypeptide binding]; other site 343509001474 TPP-binding site [chemical binding]; other site 343509001475 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 343509001476 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 343509001477 E3 interaction surface; other site 343509001478 lipoyl attachment site [posttranslational modification]; other site 343509001479 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 343509001480 E3 interaction surface; other site 343509001481 lipoyl attachment site [posttranslational modification]; other site 343509001482 e3 binding domain; Region: E3_binding; pfam02817 343509001483 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 343509001484 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 343509001485 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 343509001486 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 343509001487 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 343509001488 Phage tail tube protein FII; Region: Phage_tube; cl01390 343509001489 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 343509001490 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 343509001491 active site 343509001492 metal binding site [ion binding]; metal-binding site 343509001493 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 343509001494 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 343509001495 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 343509001496 active site 343509001497 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 343509001498 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 343509001499 substrate binding site [chemical binding]; other site 343509001500 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 343509001501 substrate binding site [chemical binding]; other site 343509001502 ligand binding site [chemical binding]; other site 343509001503 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 343509001504 spermidine synthase; Provisional; Region: PRK00811 343509001505 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 343509001506 S-adenosylmethionine binding site [chemical binding]; other site 343509001507 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 343509001508 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 343509001509 active site 343509001510 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_cladeA; cd00883 343509001511 active site clefts [active] 343509001512 zinc binding site [ion binding]; other site 343509001513 dimer interface [polypeptide binding]; other site 343509001514 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 343509001515 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 343509001516 Walker A/P-loop; other site 343509001517 ATP binding site [chemical binding]; other site 343509001518 Q-loop/lid; other site 343509001519 ABC transporter signature motif; other site 343509001520 Walker B; other site 343509001521 D-loop; other site 343509001522 H-loop/switch region; other site 343509001523 inner membrane transport permease; Provisional; Region: PRK15066 343509001524 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 343509001525 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 343509001526 tetramerization interface [polypeptide binding]; other site 343509001527 active site 343509001528 Pantoate-beta-alanine ligase; Region: PanC; cd00560 343509001529 pantoate--beta-alanine ligase; Region: panC; TIGR00018 343509001530 active site 343509001531 ATP-binding site [chemical binding]; other site 343509001532 pantoate-binding site; other site 343509001533 HXXH motif; other site 343509001534 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 343509001535 oligomerization interface [polypeptide binding]; other site 343509001536 active site 343509001537 metal binding site [ion binding]; metal-binding site 343509001538 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 343509001539 catalytic center binding site [active] 343509001540 ATP binding site [chemical binding]; other site 343509001541 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 343509001542 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 343509001543 active site 343509001544 NTP binding site [chemical binding]; other site 343509001545 metal binding triad [ion binding]; metal-binding site 343509001546 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 343509001547 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 343509001548 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 343509001549 active site 343509001550 HIGH motif; other site 343509001551 nucleotide binding site [chemical binding]; other site 343509001552 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 343509001553 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 343509001554 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 343509001555 Transglycosylase; Region: Transgly; pfam00912 343509001556 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 343509001557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 343509001558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509001559 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 343509001560 active site 343509001561 catalytic site [active] 343509001562 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 343509001563 putative substrate translocation pore; other site 343509001564 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 343509001565 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 343509001566 inhibitor-cofactor binding pocket; inhibition site 343509001567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509001568 catalytic residue [active] 343509001569 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 343509001570 hypothetical protein; Provisional; Region: PRK10578 343509001571 UPF0126 domain; Region: UPF0126; pfam03458 343509001572 UPF0126 domain; Region: UPF0126; pfam03458 343509001573 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 343509001574 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 343509001575 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 343509001576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 343509001577 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 343509001578 serine endoprotease; Provisional; Region: PRK10942 343509001579 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 343509001580 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 343509001581 protein binding site [polypeptide binding]; other site 343509001582 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 343509001583 protein binding site [polypeptide binding]; other site 343509001584 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 343509001585 metal binding site [ion binding]; metal-binding site 343509001586 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 343509001587 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 343509001588 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 343509001589 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 343509001590 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 343509001591 dimerization interface [polypeptide binding]; other site 343509001592 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 343509001593 dimer interface [polypeptide binding]; other site 343509001594 phosphorylation site [posttranslational modification] 343509001595 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 343509001596 ATP binding site [chemical binding]; other site 343509001597 Mg2+ binding site [ion binding]; other site 343509001598 G-X-G motif; other site 343509001599 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 343509001600 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 343509001601 active site 343509001602 phosphorylation site [posttranslational modification] 343509001603 intermolecular recognition site; other site 343509001604 dimerization interface [polypeptide binding]; other site 343509001605 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 343509001606 putative binding surface; other site 343509001607 active site 343509001608 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 343509001609 TRAM domain; Region: TRAM; pfam01938 343509001610 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 343509001611 HD domain; Region: HD_4; pfam13328 343509001612 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 343509001613 synthetase active site [active] 343509001614 NTP binding site [chemical binding]; other site 343509001615 metal binding site [ion binding]; metal-binding site 343509001616 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 343509001617 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 343509001618 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 343509001619 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 343509001620 homodimer interface [polypeptide binding]; other site 343509001621 metal binding site [ion binding]; metal-binding site 343509001622 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 343509001623 homodimer interface [polypeptide binding]; other site 343509001624 active site 343509001625 putative chemical substrate binding site [chemical binding]; other site 343509001626 metal binding site [ion binding]; metal-binding site 343509001627 CTP synthetase; Validated; Region: pyrG; PRK05380 343509001628 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 343509001629 Catalytic site [active] 343509001630 active site 343509001631 UTP binding site [chemical binding]; other site 343509001632 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 343509001633 active site 343509001634 putative oxyanion hole; other site 343509001635 catalytic triad [active] 343509001636 enolase; Provisional; Region: eno; PRK00077 343509001637 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 343509001638 dimer interface [polypeptide binding]; other site 343509001639 metal binding site [ion binding]; metal-binding site 343509001640 substrate binding pocket [chemical binding]; other site 343509001641 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 343509001642 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 343509001643 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 343509001644 active site 343509001645 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 343509001646 Flavodoxin; Region: Flavodoxin_1; pfam00258 343509001647 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 343509001648 FAD binding pocket [chemical binding]; other site 343509001649 FAD binding motif [chemical binding]; other site 343509001650 catalytic residues [active] 343509001651 NAD binding pocket [chemical binding]; other site 343509001652 phosphate binding motif [ion binding]; other site 343509001653 beta-alpha-beta structure motif; other site 343509001654 sulfite reductase subunit beta; Provisional; Region: PRK13504 343509001655 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 343509001656 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 343509001657 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 343509001658 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 343509001659 Active Sites [active] 343509001660 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 343509001661 metal binding site [ion binding]; metal-binding site 343509001662 siroheme synthase; Provisional; Region: cysG; PRK10637 343509001663 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 343509001664 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 343509001665 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 343509001666 active site 343509001667 SAM binding site [chemical binding]; other site 343509001668 homodimer interface [polypeptide binding]; other site 343509001669 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 343509001670 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 343509001671 Active Sites [active] 343509001672 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 343509001673 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 343509001674 CysD dimerization site [polypeptide binding]; other site 343509001675 G1 box; other site 343509001676 putative GEF interaction site [polypeptide binding]; other site 343509001677 GTP/Mg2+ binding site [chemical binding]; other site 343509001678 Switch I region; other site 343509001679 G2 box; other site 343509001680 G3 box; other site 343509001681 Switch II region; other site 343509001682 G4 box; other site 343509001683 G5 box; other site 343509001684 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 343509001685 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 343509001686 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 343509001687 ligand-binding site [chemical binding]; other site 343509001688 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 343509001689 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 343509001690 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 343509001691 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 343509001692 substrate binding site; other site 343509001693 dimer interface; other site 343509001694 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 343509001695 homotrimer interaction site [polypeptide binding]; other site 343509001696 zinc binding site [ion binding]; other site 343509001697 CDP-binding sites; other site 343509001698 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 343509001699 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 343509001700 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 343509001701 S-adenosylmethionine binding site [chemical binding]; other site 343509001702 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 343509001703 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 343509001704 Peptidase family M23; Region: Peptidase_M23; pfam01551 343509001705 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 343509001706 MutS domain I; Region: MutS_I; pfam01624 343509001707 MutS domain II; Region: MutS_II; pfam05188 343509001708 MutS domain III; Region: MutS_III; pfam05192 343509001709 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 343509001710 Walker A/P-loop; other site 343509001711 ATP binding site [chemical binding]; other site 343509001712 Q-loop/lid; other site 343509001713 ABC transporter signature motif; other site 343509001714 Walker B; other site 343509001715 D-loop; other site 343509001716 H-loop/switch region; other site 343509001717 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 343509001718 Walker A/P-loop; other site 343509001719 ATP binding site [chemical binding]; other site 343509001720 ABC transporter; Region: ABC_tran; pfam00005 343509001721 Q-loop/lid; other site 343509001722 ABC transporter signature motif; other site 343509001723 Walker B; other site 343509001724 D-loop; other site 343509001725 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 343509001726 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 343509001727 PhnA protein; Region: PhnA; pfam03831 343509001728 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 343509001729 dimer interface [polypeptide binding]; other site 343509001730 conserved gate region; other site 343509001731 putative PBP binding loops; other site 343509001732 ABC-ATPase subunit interface; other site 343509001733 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 343509001734 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 343509001735 substrate binding pocket [chemical binding]; other site 343509001736 membrane-bound complex binding site; other site 343509001737 hinge residues; other site 343509001738 recombinase A; Provisional; Region: recA; PRK09354 343509001739 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 343509001740 hexamer interface [polypeptide binding]; other site 343509001741 Walker A motif; other site 343509001742 ATP binding site [chemical binding]; other site 343509001743 Walker B motif; other site 343509001744 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 343509001745 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 343509001746 motif 1; other site 343509001747 active site 343509001748 motif 2; other site 343509001749 motif 3; other site 343509001750 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 343509001751 DHHA1 domain; Region: DHHA1; pfam02272 343509001752 carbon storage regulator; Provisional; Region: PRK01712 343509001753 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 343509001754 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 343509001755 motif II; other site 343509001756 glutamate--cysteine ligase; Provisional; Region: PRK02107 343509001757 S-ribosylhomocysteinase; Provisional; Region: PRK02260 343509001758 hypothetical protein; Provisional; Region: PRK11573 343509001759 Domain of unknown function DUF21; Region: DUF21; pfam01595 343509001760 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 343509001761 Transporter associated domain; Region: CorC_HlyC; smart01091 343509001762 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 343509001763 signal recognition particle protein; Provisional; Region: PRK10867 343509001764 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 343509001765 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 343509001766 P loop; other site 343509001767 GTP binding site [chemical binding]; other site 343509001768 Signal peptide binding domain; Region: SRP_SPB; pfam02978 343509001769 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 343509001770 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 343509001771 RimM N-terminal domain; Region: RimM; pfam01782 343509001772 PRC-barrel domain; Region: PRC; pfam05239 343509001773 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 343509001774 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 343509001775 inositol phosphate phosphatase SopB; Provisional; Region: PRK15378 343509001776 type III secretion chaperone protein SigE; Provisional; Region: PRK15202 343509001777 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 343509001778 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 343509001779 N-acetyl-D-glucosamine binding site [chemical binding]; other site 343509001780 catalytic residue [active] 343509001781 type III secretion apparatus protein OrgA/MxiK; Region: OrgA_MxiK; TIGR02555 343509001782 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 343509001783 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 343509001784 Type III secretion needle MxiH like; Region: MxiH; cl09641 343509001785 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 343509001786 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 343509001787 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 343509001788 Homeodomain-like domain; Region: HTH_23; pfam13384 343509001789 type III secretion system outer membrane pore InvG; Provisional; Region: PRK15339 343509001790 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 343509001791 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 343509001792 HrpJ-like domain; Region: HrpJ; pfam07201 343509001793 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 343509001794 type III secretion system protein InvA; Provisional; Region: PRK15337 343509001795 Invasion protein B family; Region: Invas_SpaK; cl04129 343509001796 ATP synthase SpaL; Validated; Region: PRK08149 343509001797 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 343509001798 Walker A motif; other site 343509001799 ATP binding site [chemical binding]; other site 343509001800 Walker B motif; other site 343509001801 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 343509001802 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 343509001803 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 343509001804 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 343509001805 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 343509001806 type III secretion system protein SpaS; Validated; Region: PRK08156 343509001807 chaperone protein SicA; Provisional; Region: PRK15331 343509001808 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 343509001809 binding surface 343509001810 TPR motif; other site 343509001811 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 343509001812 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; cl17355 343509001813 DNA binding site [nucleotide binding] 343509001814 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 343509001815 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 343509001816 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 343509001817 Chorismate mutase type II; Region: CM_2; cl00693 343509001818 prephenate dehydrogenase; Validated; Region: PRK08507 343509001819 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 343509001820 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 343509001821 Prephenate dehydratase; Region: PDT; pfam00800 343509001822 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 343509001823 putative L-Phe binding site [chemical binding]; other site 343509001824 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 343509001825 30S subunit binding site; other site 343509001826 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 343509001827 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 343509001828 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 343509001829 RNA binding surface [nucleotide binding]; other site 343509001830 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 343509001831 active site 343509001832 protein disaggregation chaperone; Provisional; Region: PRK10865 343509001833 Clp amino terminal domain; Region: Clp_N; pfam02861 343509001834 Clp amino terminal domain; Region: Clp_N; pfam02861 343509001835 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 343509001836 Walker A motif; other site 343509001837 ATP binding site [chemical binding]; other site 343509001838 Walker B motif; other site 343509001839 arginine finger; other site 343509001840 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 343509001841 Walker A motif; other site 343509001842 ATP binding site [chemical binding]; other site 343509001843 Walker B motif; other site 343509001844 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 343509001845 Glutamine amidotransferases class-II (GATase) asparagine synthase_betaLS-type. Carbapenam synthetase (CarA) is an ATP/Mg2+-dependent enzyme that catalyzes the formation of the beta-lactam ring in (5R)-carbapenem-3-carboxylic acid biosynthesis. CarA is...; Region: betaLS_CarA_N; cd01909 343509001846 putative active site [active] 343509001847 Domain of unknown function (DUF1933); Region: DUF1933; pfam09147 343509001848 betaLS subunit interaction site [polypeptide binding]; other site 343509001849 CarA subunit interaction site; other site 343509001850 hypothetical protein; Provisional; Region: PRK05421 343509001851 putative catalytic site [active] 343509001852 putative phosphate binding site [ion binding]; other site 343509001853 putative metal binding site [ion binding]; other site 343509001854 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 343509001855 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 343509001856 N-acetyl-D-glucosamine binding site [chemical binding]; other site 343509001857 catalytic residue [active] 343509001858 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 343509001859 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 343509001860 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 343509001861 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 343509001862 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 343509001863 RNA/DNA hybrid binding site [nucleotide binding]; other site 343509001864 active site 343509001865 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 343509001866 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 343509001867 active site 343509001868 catalytic site [active] 343509001869 substrate binding site [chemical binding]; other site 343509001870 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 343509001871 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 343509001872 active site 343509001873 catalytic triad [active] 343509001874 dimer interface [polypeptide binding]; other site 343509001875 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 343509001876 active site 343509001877 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 343509001878 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 343509001879 putative active site [active] 343509001880 putative dimer interface [polypeptide binding]; other site 343509001881 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 343509001882 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 343509001883 metal binding site [ion binding]; metal-binding site 343509001884 dimer interface [polypeptide binding]; other site 343509001885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 343509001886 active site 343509001887 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 343509001888 gamma-glutamyl kinase; Provisional; Region: PRK05429 343509001889 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 343509001890 nucleotide binding site [chemical binding]; other site 343509001891 homotetrameric interface [polypeptide binding]; other site 343509001892 putative phosphate binding site [ion binding]; other site 343509001893 putative allosteric binding site; other site 343509001894 PUA domain; Region: PUA; pfam01472 343509001895 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 343509001896 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 343509001897 putative catalytic cysteine [active] 343509001898 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 343509001899 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 343509001900 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 343509001901 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 343509001902 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 343509001903 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509001904 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509001905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 343509001906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509001907 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 343509001908 Transcriptional regulators [Transcription]; Region: PurR; COG1609 343509001909 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 343509001910 DNA binding site [nucleotide binding] 343509001911 domain linker motif; other site 343509001912 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 343509001913 dimerization interface [polypeptide binding]; other site 343509001914 ligand binding site [chemical binding]; other site 343509001915 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 343509001916 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 343509001917 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 343509001918 inhibitor binding site; inhibition site 343509001919 catalytic Zn binding site [ion binding]; other site 343509001920 structural Zn binding site [ion binding]; other site 343509001921 NADP binding site [chemical binding]; other site 343509001922 tetramer interface [polypeptide binding]; other site 343509001923 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 343509001924 N- and C-terminal domain interface [polypeptide binding]; other site 343509001925 D-xylulose kinase; Region: XylB; TIGR01312 343509001926 active site 343509001927 MgATP binding site [chemical binding]; other site 343509001928 catalytic site [active] 343509001929 metal binding site [ion binding]; metal-binding site 343509001930 xylulose binding site [chemical binding]; other site 343509001931 putative homodimer interface [polypeptide binding]; other site 343509001932 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 343509001933 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 343509001934 Walker A/P-loop; other site 343509001935 ATP binding site [chemical binding]; other site 343509001936 Q-loop/lid; other site 343509001937 ABC transporter signature motif; other site 343509001938 Walker B; other site 343509001939 D-loop; other site 343509001940 H-loop/switch region; other site 343509001941 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 343509001942 Protein of unknown function (DUF1218); Region: DUF1218; pfam06749 343509001943 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 343509001944 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 343509001945 TM-ABC transporter signature motif; other site 343509001946 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 343509001947 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 343509001948 putative ligand binding site [chemical binding]; other site 343509001949 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 343509001950 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509001951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509001952 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; cl11398 343509001953 dimerization interface [polypeptide binding]; other site 343509001954 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 343509001955 inhibitor site; inhibition site 343509001956 active site 343509001957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509001958 Q-loop/lid; other site 343509001959 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 343509001960 ParA-like protein; Provisional; Region: PHA02518 343509001961 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 343509001962 P-loop; other site 343509001963 Magnesium ion binding site [ion binding]; other site 343509001964 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 343509001965 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 343509001966 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 343509001967 homotrimer interaction site [polypeptide binding]; other site 343509001968 putative active site [active] 343509001969 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509001970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509001971 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509001972 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 343509001973 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509001974 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 343509001975 classical (c) SDRs; Region: SDR_c; cd05233 343509001976 NAD(P) binding site [chemical binding]; other site 343509001977 active site 343509001978 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 343509001979 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 343509001980 NAD binding site [chemical binding]; other site 343509001981 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 343509001982 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 343509001983 putative active site [active] 343509001984 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 343509001985 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 343509001986 Divalent cation transporter; Region: MgtE; pfam01769 343509001987 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 343509001988 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 343509001989 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 343509001990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 343509001991 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 343509001992 putative substrate translocation pore; other site 343509001993 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 343509001994 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 343509001995 ADP binding site [chemical binding]; other site 343509001996 magnesium binding site [ion binding]; other site 343509001997 putative shikimate binding site; other site 343509001998 hypothetical protein; Provisional; Region: PRK10380 343509001999 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 343509002000 Bacterial transcriptional regulator; Region: IclR; pfam01614 343509002001 recombination associated protein; Reviewed; Region: rdgC; PRK00321 343509002002 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 343509002003 putative proline-specific permease; Provisional; Region: proY; PRK10580 343509002004 putative proline-specific permease; Provisional; Region: proY; PRK10580 343509002005 peroxidase; Provisional; Region: PRK15000 343509002006 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 343509002007 dimer interface [polypeptide binding]; other site 343509002008 decamer (pentamer of dimers) interface [polypeptide binding]; other site 343509002009 catalytic triad [active] 343509002010 peroxidatic and resolving cysteines [active] 343509002011 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 343509002012 amidase catalytic site [active] 343509002013 Zn binding residues [ion binding]; other site 343509002014 substrate binding site [chemical binding]; other site 343509002015 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; cl02712 343509002016 Protein of unknown function, DUF479; Region: DUF479; cl01203 343509002017 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 343509002018 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 343509002019 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 343509002020 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 343509002021 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 343509002022 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 343509002023 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 343509002024 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 343509002025 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 343509002026 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 343509002027 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 343509002028 Protein export membrane protein; Region: SecD_SecF; pfam02355 343509002029 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 343509002030 ATP cone domain; Region: ATP-cone; pfam03477 343509002031 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 343509002032 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 343509002033 catalytic motif [active] 343509002034 Zn binding site [ion binding]; other site 343509002035 RibD C-terminal domain; Region: RibD_C; cl17279 343509002036 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 343509002037 homopentamer interface [polypeptide binding]; other site 343509002038 active site 343509002039 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 343509002040 putative RNA binding site [nucleotide binding]; other site 343509002041 thiamine monophosphate kinase; Provisional; Region: PRK05731 343509002042 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 343509002043 ATP binding site [chemical binding]; other site 343509002044 dimerization interface [polypeptide binding]; other site 343509002045 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 343509002046 tetramer interfaces [polypeptide binding]; other site 343509002047 binuclear metal-binding site [ion binding]; other site 343509002048 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 343509002049 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 343509002050 TPP-binding site; other site 343509002051 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 343509002052 PYR/PP interface [polypeptide binding]; other site 343509002053 dimer interface [polypeptide binding]; other site 343509002054 TPP binding site [chemical binding]; other site 343509002055 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 343509002056 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 343509002057 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 343509002058 substrate binding pocket [chemical binding]; other site 343509002059 chain length determination region; other site 343509002060 substrate-Mg2+ binding site; other site 343509002061 catalytic residues [active] 343509002062 aspartate-rich region 1; other site 343509002063 active site lid residues [active] 343509002064 aspartate-rich region 2; other site 343509002065 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 343509002066 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 343509002067 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 343509002068 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 343509002069 Ligand Binding Site [chemical binding]; other site 343509002070 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 343509002071 active site residue [active] 343509002072 DJ-1 family protein; Region: not_thiJ; TIGR01383 343509002073 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 343509002074 conserved cys residue [active] 343509002075 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 343509002076 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 343509002077 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 343509002078 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 343509002079 Major Facilitator Superfamily; Region: MFS_1; pfam07690 343509002080 putative substrate translocation pore; other site 343509002081 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 343509002082 UbiA prenyltransferase family; Region: UbiA; pfam01040 343509002083 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 343509002084 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 343509002085 Subunit I/III interface [polypeptide binding]; other site 343509002086 Subunit III/IV interface [polypeptide binding]; other site 343509002087 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 343509002088 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 343509002089 D-pathway; other site 343509002090 Putative ubiquinol binding site [chemical binding]; other site 343509002091 Low-spin heme (heme b) binding site [chemical binding]; other site 343509002092 Putative water exit pathway; other site 343509002093 Binuclear center (heme o3/CuB) [ion binding]; other site 343509002094 K-pathway; other site 343509002095 Putative proton exit pathway; other site 343509002096 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 343509002097 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 343509002098 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 343509002099 hypothetical protein; Provisional; Region: PRK11627 343509002100 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 343509002101 transcriptional regulator BolA; Provisional; Region: PRK11628 343509002102 trigger factor; Provisional; Region: tig; PRK01490 343509002103 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 343509002104 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 343509002105 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 343509002106 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 343509002107 oligomer interface [polypeptide binding]; other site 343509002108 active site residues [active] 343509002109 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 343509002110 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 343509002111 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 343509002112 Walker A motif; other site 343509002113 ATP binding site [chemical binding]; other site 343509002114 Walker B motif; other site 343509002115 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 343509002116 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 343509002117 Found in ATP-dependent protease La (LON); Region: LON; smart00464 343509002118 Found in ATP-dependent protease La (LON); Region: LON; smart00464 343509002119 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 343509002120 Walker A motif; other site 343509002121 ATP binding site [chemical binding]; other site 343509002122 Walker B motif; other site 343509002123 arginine finger; other site 343509002124 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 343509002125 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 343509002126 IHF dimer interface [polypeptide binding]; other site 343509002127 IHF - DNA interface [nucleotide binding]; other site 343509002128 periplasmic folding chaperone; Provisional; Region: PRK10788 343509002129 SurA N-terminal domain; Region: SurA_N_3; cl07813 343509002130 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 343509002131 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 343509002132 Ligand Binding Site [chemical binding]; other site 343509002133 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 343509002134 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 343509002135 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509002136 Walker A/P-loop; other site 343509002137 ATP binding site [chemical binding]; other site 343509002138 Q-loop/lid; other site 343509002139 ABC transporter signature motif; other site 343509002140 Walker B; other site 343509002141 D-loop; other site 343509002142 H-loop/switch region; other site 343509002143 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 343509002144 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 343509002145 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509002146 Walker A/P-loop; other site 343509002147 ATP binding site [chemical binding]; other site 343509002148 Q-loop/lid; other site 343509002149 ABC transporter signature motif; other site 343509002150 Walker B; other site 343509002151 D-loop; other site 343509002152 H-loop/switch region; other site 343509002153 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 343509002154 Nitrogen regulatory protein P-II; Region: P-II; smart00938 343509002155 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 343509002156 gene expression modulator; Provisional; Region: PRK10945 343509002157 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 343509002158 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 343509002159 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 343509002160 Protein export membrane protein; Region: SecD_SecF; cl14618 343509002161 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 343509002162 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 343509002163 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 343509002164 HlyD family secretion protein; Region: HlyD_3; pfam13437 343509002165 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 343509002166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509002167 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 343509002168 Primosomal replication protein priB and priC; Region: priB_priC; pfam07445 343509002169 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 343509002170 active site 343509002171 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 343509002172 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 343509002173 Walker A motif; other site 343509002174 ATP binding site [chemical binding]; other site 343509002175 Walker B motif; other site 343509002176 DNA polymerase III subunit delta'; Validated; Region: PRK08485 343509002177 arginine finger; other site 343509002178 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 343509002179 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 343509002180 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 343509002181 hypothetical protein; Validated; Region: PRK00153 343509002182 recombination protein RecR; Reviewed; Region: recR; PRK00076 343509002183 RecR protein; Region: RecR; pfam02132 343509002184 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 343509002185 putative active site [active] 343509002186 putative metal-binding site [ion binding]; other site 343509002187 tetramer interface [polypeptide binding]; other site 343509002188 heat shock protein 90; Provisional; Region: PRK05218 343509002189 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 343509002190 ATP binding site [chemical binding]; other site 343509002191 Mg2+ binding site [ion binding]; other site 343509002192 G-X-G motif; other site 343509002193 adenylate kinase; Reviewed; Region: adk; PRK00279 343509002194 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 343509002195 AMP-binding site [chemical binding]; other site 343509002196 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 343509002197 ferrochelatase; Reviewed; Region: hemH; PRK00035 343509002198 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 343509002199 C-terminal domain interface [polypeptide binding]; other site 343509002200 active site 343509002201 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 343509002202 active site 343509002203 N-terminal domain interface [polypeptide binding]; other site 343509002204 TraB family; Region: TraB; cl12050 343509002205 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 343509002206 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 343509002207 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 343509002208 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 343509002209 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 343509002210 Walker A/P-loop; other site 343509002211 ATP binding site [chemical binding]; other site 343509002212 Q-loop/lid; other site 343509002213 ABC transporter signature motif; other site 343509002214 Walker B; other site 343509002215 D-loop; other site 343509002216 H-loop/switch region; other site 343509002217 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 343509002218 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 343509002219 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 343509002220 ATP-grasp domain; Region: ATP-grasp; pfam02222 343509002221 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 343509002222 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 343509002223 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 343509002224 putative active site [active] 343509002225 putative metal binding site [ion binding]; other site 343509002226 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 343509002227 substrate binding site [chemical binding]; other site 343509002228 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 343509002229 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 343509002230 active site 343509002231 HIGH motif; other site 343509002232 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 343509002233 KMSKS motif; other site 343509002234 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 343509002235 tRNA binding surface [nucleotide binding]; other site 343509002236 anticodon binding site; other site 343509002237 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 343509002238 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 343509002239 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 343509002240 homodimer interface [polypeptide binding]; other site 343509002241 NADP binding site [chemical binding]; other site 343509002242 substrate binding site [chemical binding]; other site 343509002243 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 343509002244 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 343509002245 NlpC/P60 family; Region: NLPC_P60; cl17555 343509002246 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 343509002247 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 343509002248 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 343509002249 catalytic residues [active] 343509002250 catalytic nucleophile [active] 343509002251 Presynaptic Site I dimer interface [polypeptide binding]; other site 343509002252 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 343509002253 Synaptic Flat tetramer interface [polypeptide binding]; other site 343509002254 Synaptic Site I dimer interface [polypeptide binding]; other site 343509002255 DNA binding site [nucleotide binding] 343509002256 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 343509002257 DNA-binding interface [nucleotide binding]; DNA binding site 343509002258 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 343509002259 Tail fiber protein gp37 C terminal; Region: gp37_C; pfam12604 343509002260 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 343509002261 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 343509002262 Phage protein GP46; Region: GP46; pfam07409 343509002263 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 343509002264 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 343509002265 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 343509002266 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 343509002267 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 343509002268 Phage tail tube protein; Region: Tail_tube; pfam10618 343509002269 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 343509002270 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 343509002271 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 343509002272 Phage capsid family; Region: Phage_capsid; pfam05065 343509002273 Phage portal protein; Region: Phage_portal; pfam04860 343509002274 Phage-related protein [Function unknown]; Region: COG4695 343509002275 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 343509002276 Phage terminase, small subunit; Region: Terminase_4; pfam05119 343509002277 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 343509002278 active site 343509002279 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 343509002280 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 343509002281 cofactor binding site; other site 343509002282 DNA binding site [nucleotide binding] 343509002283 substrate interaction site [chemical binding]; other site 343509002284 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509002285 catalytic residues [active] 343509002286 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 343509002287 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 343509002288 DNA replication protein DnaC; Validated; Region: PRK07952 343509002289 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 343509002290 Walker B motif; other site 343509002291 KilA-N domain; Region: KilA-N; pfam04383 343509002292 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509002293 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 343509002294 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 343509002295 dimer interface [polypeptide binding]; other site 343509002296 ssDNA binding site [nucleotide binding]; other site 343509002297 tetramer (dimer of dimers) interface [polypeptide binding]; other site 343509002298 hypothetical protein; Provisional; Region: PRK09956 343509002299 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509002300 inner membrane protein; Provisional; Region: PRK11648 343509002301 benzoate transport; Region: 2A0115; TIGR00895 343509002302 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 343509002303 putative substrate translocation pore; other site 343509002304 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 343509002305 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 343509002306 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 343509002307 PAS fold; Region: PAS_4; pfam08448 343509002308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509002309 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 343509002310 DNA binding residues [nucleotide binding] 343509002311 dimerization interface [polypeptide binding]; other site 343509002312 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 343509002313 NinB protein; Region: NinB; pfam05772 343509002314 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 343509002315 Endodeoxyribonuclease RusA; Region: RusA; cl01885 343509002316 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 343509002317 catalytic residue [active] 343509002318 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 343509002319 Phage terminase large subunit; Region: Terminase_3; cl12054 343509002320 Terminase-like family; Region: Terminase_6; pfam03237 343509002321 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 343509002322 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 343509002323 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 343509002324 virion protein; Provisional; Region: V; PHA02564 343509002325 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 343509002326 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509002327 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 343509002328 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 343509002329 hypothetical protein; Provisional; Region: PRK09956 343509002330 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509002331 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 343509002332 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 343509002333 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509002334 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509002335 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 343509002336 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 343509002337 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 343509002338 DsbD alpha interface [polypeptide binding]; other site 343509002339 catalytic residues [active] 343509002340 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 343509002341 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 343509002342 catalytic residues [active] 343509002343 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 343509002344 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 343509002345 catalytic residues [active] 343509002346 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509002347 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509002348 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509002349 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509002350 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 343509002351 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 343509002352 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 343509002353 EamA-like transporter family; Region: EamA; pfam00892 343509002354 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 343509002355 non-specific DNA binding site [nucleotide binding]; other site 343509002356 salt bridge; other site 343509002357 sequence-specific DNA binding site [nucleotide binding]; other site 343509002358 RHS Repeat; Region: RHS_repeat; cl11982 343509002359 RHS Repeat; Region: RHS_repeat; cl11982 343509002360 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 343509002361 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 343509002362 amidase catalytic site [active] 343509002363 Zn binding residues [ion binding]; other site 343509002364 substrate binding site [chemical binding]; other site 343509002365 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 343509002366 lipoprotein; Provisional; Region: PRK10397 343509002367 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 343509002368 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 343509002369 putative acyl-acceptor binding pocket; other site 343509002370 Protein of unknown function, DUF481; Region: DUF481; cl01213 343509002371 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 343509002372 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 343509002373 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 343509002374 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 343509002375 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509002376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509002377 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509002378 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 343509002379 lipoyl synthase; Provisional; Region: PRK05481 343509002380 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 343509002381 FeS/SAM binding site; other site 343509002382 lipoate-protein ligase B; Provisional; Region: PRK14342 343509002383 hypothetical protein; Provisional; Region: PRK04998 343509002384 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 343509002385 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 343509002386 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 343509002387 cell wall shape-determining protein; Provisional; Region: PRK10794 343509002388 penicillin-binding protein 2; Provisional; Region: PRK10795 343509002389 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 343509002390 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 343509002391 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 343509002392 ribosome-associated protein; Provisional; Region: PRK11538 343509002393 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 343509002394 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 343509002395 active site 343509002396 (T/H)XGH motif; other site 343509002397 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 343509002398 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 343509002399 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 343509002400 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 343509002401 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 343509002402 HIGH motif; other site 343509002403 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 343509002404 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 343509002405 active site 343509002406 KMSKS motif; other site 343509002407 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 343509002408 tRNA binding surface [nucleotide binding]; other site 343509002409 hypothetical protein; Provisional; Region: PRK11032 343509002410 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 343509002411 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 343509002412 Walker A/P-loop; other site 343509002413 ATP binding site [chemical binding]; other site 343509002414 Q-loop/lid; other site 343509002415 ABC transporter signature motif; other site 343509002416 Walker B; other site 343509002417 D-loop; other site 343509002418 H-loop/switch region; other site 343509002419 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 343509002420 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 343509002421 substrate binding pocket [chemical binding]; other site 343509002422 membrane-bound complex binding site; other site 343509002423 hinge residues; other site 343509002424 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 343509002425 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 343509002426 putative active site [active] 343509002427 catalytic triad [active] 343509002428 putative dimer interface [polypeptide binding]; other site 343509002429 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 343509002430 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 343509002431 Transporter associated domain; Region: CorC_HlyC; smart01091 343509002432 metal-binding heat shock protein; Provisional; Region: PRK00016 343509002433 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 343509002434 PhoH-like protein; Region: PhoH; pfam02562 343509002435 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 343509002436 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 343509002437 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 343509002438 FeS/SAM binding site; other site 343509002439 TRAM domain; Region: TRAM; pfam01938 343509002440 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 343509002441 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 343509002442 asparagine synthetase B; Provisional; Region: asnB; PRK09431 343509002443 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 343509002444 active site 343509002445 dimer interface [polypeptide binding]; other site 343509002446 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 343509002447 Ligand Binding Site [chemical binding]; other site 343509002448 Molecular Tunnel; other site 343509002449 MarR family; Region: MarR; pfam01047 343509002450 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 343509002451 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 343509002452 nucleotide binding site [chemical binding]; other site 343509002453 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 343509002454 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 343509002455 active site 343509002456 dimer interface [polypeptide binding]; other site 343509002457 Mor transcription activator family; Region: Mor; pfam08765 343509002458 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 343509002459 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 343509002460 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 343509002461 metal binding site [ion binding]; metal-binding site 343509002462 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 343509002463 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 343509002464 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509002465 Walker A/P-loop; other site 343509002466 ATP binding site [chemical binding]; other site 343509002467 Integrase core domain; Region: rve; pfam00665 343509002468 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 343509002469 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 343509002470 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 343509002471 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 343509002472 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 343509002473 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 343509002474 N-acetyl-D-glucosamine binding site [chemical binding]; other site 343509002475 catalytic residue [active] 343509002476 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 343509002477 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 343509002478 Protein of unknown function (DUF935); Region: DUF935; pfam06074 343509002479 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 343509002480 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 343509002481 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 343509002482 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 343509002483 Gp37 protein; Region: Gp37; pfam09646 343509002484 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 343509002485 Phage tail tube protein FII; Region: Phage_tube; cl01390 343509002486 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 343509002487 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 343509002488 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 343509002489 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 343509002490 Phage protein D [General function prediction only]; Region: COG3500 343509002491 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 343509002492 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 343509002493 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 343509002494 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509002495 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 343509002496 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 343509002497 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 343509002498 active site 343509002499 trimer interface [polypeptide binding]; other site 343509002500 allosteric site; other site 343509002501 active site lid [active] 343509002502 hexamer (dimer of trimers) interface [polypeptide binding]; other site 343509002503 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 343509002504 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 343509002505 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 343509002506 active site turn [active] 343509002507 phosphorylation site [posttranslational modification] 343509002508 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 343509002509 HPr interaction site; other site 343509002510 glycerol kinase (GK) interaction site [polypeptide binding]; other site 343509002511 active site 343509002512 phosphorylation site [posttranslational modification] 343509002513 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 343509002514 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 343509002515 active site 343509002516 HIGH motif; other site 343509002517 nucleotide binding site [chemical binding]; other site 343509002518 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 343509002519 KMSKS motif; other site 343509002520 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 343509002521 ferric uptake regulator; Provisional; Region: fur; PRK09462 343509002522 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 343509002523 metal binding site 2 [ion binding]; metal-binding site 343509002524 putative DNA binding helix; other site 343509002525 metal binding site 1 [ion binding]; metal-binding site 343509002526 dimer interface [polypeptide binding]; other site 343509002527 structural Zn2+ binding site [ion binding]; other site 343509002528 flavodoxin FldA; Validated; Region: PRK09267 343509002529 LexA regulated protein; Provisional; Region: PRK11675 343509002530 PGAP1-like protein; Region: PGAP1; pfam07819 343509002531 replication initiation regulator SeqA; Provisional; Region: PRK11187 343509002532 phosphoglucomutase; Validated; Region: PRK07564 343509002533 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 343509002534 active site 343509002535 substrate binding site [chemical binding]; other site 343509002536 metal binding site [ion binding]; metal-binding site 343509002537 Protein of unknown function (DUF523); Region: DUF523; pfam04463 343509002538 Uncharacterized conserved protein [Function unknown]; Region: COG3272 343509002539 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 343509002540 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 343509002541 DNA photolyase; Region: DNA_photolyase; pfam00875 343509002542 Uncharacterized conserved protein [Function unknown]; Region: COG0327 343509002543 metal-binding protein; Provisional; Region: PRK10799 343509002544 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 343509002545 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 343509002546 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 343509002547 dimer interface [polypeptide binding]; other site 343509002548 active site 343509002549 citrylCoA binding site [chemical binding]; other site 343509002550 NADH binding [chemical binding]; other site 343509002551 cationic pore residues; other site 343509002552 oxalacetate/citrate binding site [chemical binding]; other site 343509002553 coenzyme A binding site [chemical binding]; other site 343509002554 catalytic triad [active] 343509002555 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 343509002556 Iron-sulfur protein interface; other site 343509002557 proximal quinone binding site [chemical binding]; other site 343509002558 SdhD (CybS) interface [polypeptide binding]; other site 343509002559 proximal heme binding site [chemical binding]; other site 343509002560 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 343509002561 SdhC subunit interface [polypeptide binding]; other site 343509002562 proximal heme binding site [chemical binding]; other site 343509002563 cardiolipin binding site; other site 343509002564 Iron-sulfur protein interface; other site 343509002565 proximal quinone binding site [chemical binding]; other site 343509002566 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 343509002567 L-aspartate oxidase; Provisional; Region: PRK06175 343509002568 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 343509002569 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 343509002570 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 343509002571 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 343509002572 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 343509002573 TPP-binding site [chemical binding]; other site 343509002574 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 343509002575 dimer interface [polypeptide binding]; other site 343509002576 PYR/PP interface [polypeptide binding]; other site 343509002577 TPP binding site [chemical binding]; other site 343509002578 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 343509002579 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 343509002580 E3 interaction surface; other site 343509002581 lipoyl attachment site [posttranslational modification]; other site 343509002582 e3 binding domain; Region: E3_binding; pfam02817 343509002583 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 343509002584 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 343509002585 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 343509002586 CoA-ligase; Region: Ligase_CoA; pfam00549 343509002587 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 343509002588 CoA binding domain; Region: CoA_binding; smart00881 343509002589 CoA-ligase; Region: Ligase_CoA; pfam00549 343509002590 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 343509002591 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 343509002592 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 343509002593 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 343509002594 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 343509002595 active site 343509002596 colicin uptake protein TolQ; Provisional; Region: PRK10801 343509002597 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 343509002598 colicin uptake protein TolR; Provisional; Region: PRK11024 343509002599 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 343509002600 TolA C-terminal; Region: TolA; pfam06519 343509002601 translocation protein TolB; Provisional; Region: tolB; PRK03629 343509002602 TolB amino-terminal domain; Region: TolB_N; pfam04052 343509002603 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 343509002604 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 343509002605 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 343509002606 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 343509002607 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 343509002608 ligand binding site [chemical binding]; other site 343509002609 tol-pal system protein YbgF; Provisional; Region: PRK10803 343509002610 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 343509002611 binding surface 343509002612 TPR motif; other site 343509002613 quinolinate synthetase; Provisional; Region: PRK09375 343509002614 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 343509002615 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 343509002616 active site 343509002617 metal binding site [ion binding]; metal-binding site 343509002618 Cation efflux family; Region: Cation_efflux; cl00316 343509002619 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 343509002620 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 343509002621 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 343509002622 catalytic core [active] 343509002623 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 343509002624 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 343509002625 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 343509002626 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 343509002627 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 343509002628 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 343509002629 NAD binding site [chemical binding]; other site 343509002630 homodimer interface [polypeptide binding]; other site 343509002631 active site 343509002632 substrate binding site [chemical binding]; other site 343509002633 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 343509002634 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 343509002635 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 343509002636 ATP-grasp domain; Region: ATP-grasp_4; cl17255 343509002637 6-phosphogluconolactonase; Provisional; Region: PRK11028 343509002638 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 343509002639 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 343509002640 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 343509002641 inhibitor-cofactor binding pocket; inhibition site 343509002642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509002643 catalytic residue [active] 343509002644 biotin synthase; Provisional; Region: PRK15108 343509002645 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 343509002646 FeS/SAM binding site; other site 343509002647 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 343509002648 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 343509002649 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 343509002650 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509002651 catalytic residue [active] 343509002652 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 343509002653 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 343509002654 S-adenosylmethionine binding site [chemical binding]; other site 343509002655 AAA domain; Region: AAA_26; pfam13500 343509002656 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 343509002657 excinuclease ABC subunit B; Provisional; Region: PRK05298 343509002658 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 343509002659 ATP binding site [chemical binding]; other site 343509002660 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 343509002661 nucleotide binding region [chemical binding]; other site 343509002662 ATP-binding site [chemical binding]; other site 343509002663 Ultra-violet resistance protein B; Region: UvrB; pfam12344 343509002664 UvrB/uvrC motif; Region: UVR; pfam02151 343509002665 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 343509002666 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 343509002667 phosphate binding site [ion binding]; other site 343509002668 putative substrate binding pocket [chemical binding]; other site 343509002669 dimer interface [polypeptide binding]; other site 343509002670 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 343509002671 trimer interface [polypeptide binding]; other site 343509002672 dimer interface [polypeptide binding]; other site 343509002673 putative active site [active] 343509002674 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 343509002675 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 343509002676 D-cysteine desulfhydrase; Validated; Region: PRK03910 343509002677 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 343509002678 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509002679 catalytic residue [active] 343509002680 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 343509002681 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 343509002682 Walker A/P-loop; other site 343509002683 ATP binding site [chemical binding]; other site 343509002684 Q-loop/lid; other site 343509002685 ABC transporter signature motif; other site 343509002686 Walker B; other site 343509002687 D-loop; other site 343509002688 H-loop/switch region; other site 343509002689 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 343509002690 DEAD-like helicases superfamily; Region: DEXDc; smart00487 343509002691 ATP binding site [chemical binding]; other site 343509002692 Mg++ binding site [ion binding]; other site 343509002693 motif III; other site 343509002694 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 343509002695 nucleotide binding region [chemical binding]; other site 343509002696 ATP-binding site [chemical binding]; other site 343509002697 Methyltransferase domain; Region: Methyltransf_12; pfam08242 343509002698 Methyltransferase domain; Region: Methyltransf_23; pfam13489 343509002699 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 343509002700 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509002701 Walker A/P-loop; other site 343509002702 ATP binding site [chemical binding]; other site 343509002703 Q-loop/lid; other site 343509002704 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 343509002705 DEAD_2; Region: DEAD_2; pfam06733 343509002706 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 343509002707 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 343509002708 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 343509002709 dimerization interface [polypeptide binding]; other site 343509002710 DPS ferroxidase diiron center [ion binding]; other site 343509002711 ion pore; other site 343509002712 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 343509002713 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509002714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509002715 Walker A/P-loop; other site 343509002716 ATP binding site [chemical binding]; other site 343509002717 ABC transporter signature motif; other site 343509002718 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509002719 Walker B; other site 343509002720 ABC transporter; Region: ABC_tran_2; pfam12848 343509002721 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 343509002722 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 343509002723 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 343509002724 dimer interface [polypeptide binding]; other site 343509002725 putative functional site; other site 343509002726 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 343509002727 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 343509002728 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 343509002729 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 343509002730 serine transporter; Region: stp; TIGR00814 343509002731 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 343509002732 GSH binding site [chemical binding]; other site 343509002733 catalytic residues [active] 343509002734 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 343509002735 ATP-grasp domain; Region: ATP-grasp_4; cl17255 343509002736 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 343509002737 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 343509002738 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 343509002739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509002740 Walker A/P-loop; other site 343509002741 ATP binding site [chemical binding]; other site 343509002742 Q-loop/lid; other site 343509002743 ABC transporter signature motif; other site 343509002744 Walker B; other site 343509002745 D-loop; other site 343509002746 H-loop/switch region; other site 343509002747 TOBE domain; Region: TOBE_2; pfam08402 343509002748 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 343509002749 dimer interface [polypeptide binding]; other site 343509002750 conserved gate region; other site 343509002751 putative PBP binding loops; other site 343509002752 ABC-ATPase subunit interface; other site 343509002753 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 343509002754 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 343509002755 dimer interface [polypeptide binding]; other site 343509002756 conserved gate region; other site 343509002757 putative PBP binding loops; other site 343509002758 ABC-ATPase subunit interface; other site 343509002759 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 343509002760 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 343509002761 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 343509002762 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 343509002763 dimer interface [polypeptide binding]; other site 343509002764 active site 343509002765 Int/Topo IB signature motif; other site 343509002766 ERF superfamily; Region: ERF; pfam04404 343509002767 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 343509002768 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 343509002769 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509002770 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 343509002771 synthetase active site [active] 343509002772 NTP binding site [chemical binding]; other site 343509002773 metal binding site [ion binding]; metal-binding site 343509002774 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 343509002775 non-specific DNA binding site [nucleotide binding]; other site 343509002776 sequence-specific DNA binding site [nucleotide binding]; other site 343509002777 salt bridge; other site 343509002778 Predicted transcriptional regulator [Transcription]; Region: COG2932 343509002779 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 343509002780 Catalytic site [active] 343509002781 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 343509002782 non-specific DNA binding site [nucleotide binding]; other site 343509002783 Predicted transcriptional regulator [Transcription]; Region: COG2932 343509002784 salt bridge; other site 343509002785 sequence-specific DNA binding site [nucleotide binding]; other site 343509002786 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 343509002787 Catalytic site [active] 343509002788 NinB protein; Region: NinB; pfam05772 343509002789 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509002790 catalytic residues [active] 343509002791 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509002792 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509002793 hypothetical protein; Provisional; Region: PRK11835 343509002794 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 343509002795 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509002796 Walker A/P-loop; other site 343509002797 ATP binding site [chemical binding]; other site 343509002798 Q-loop/lid; other site 343509002799 ABC transporter signature motif; other site 343509002800 Walker B; other site 343509002801 D-loop; other site 343509002802 H-loop/switch region; other site 343509002803 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 343509002804 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509002805 Walker A/P-loop; other site 343509002806 ATP binding site [chemical binding]; other site 343509002807 Q-loop/lid; other site 343509002808 ABC transporter signature motif; other site 343509002809 Walker B; other site 343509002810 D-loop; other site 343509002811 H-loop/switch region; other site 343509002812 microcin C ABC transporter permease; Provisional; Region: PRK15021 343509002813 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 343509002814 dimer interface [polypeptide binding]; other site 343509002815 conserved gate region; other site 343509002816 putative PBP binding loops; other site 343509002817 ABC-ATPase subunit interface; other site 343509002818 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 343509002819 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 343509002820 dimer interface [polypeptide binding]; other site 343509002821 conserved gate region; other site 343509002822 putative PBP binding loops; other site 343509002823 ABC-ATPase subunit interface; other site 343509002824 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 343509002825 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 343509002826 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 343509002827 NlpC/P60 family; Region: NLPC_P60; pfam00877 343509002828 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 343509002829 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 343509002830 putative substrate binding site [chemical binding]; other site 343509002831 putative ATP binding site [chemical binding]; other site 343509002832 lysine transporter; Provisional; Region: PRK10836 343509002833 S-formylglutathione hydrolase; Region: PLN02442 343509002834 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 343509002835 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 343509002836 active site 343509002837 Predicted membrane protein [Function unknown]; Region: COG2311 343509002838 hypothetical protein; Provisional; Region: PRK10835 343509002839 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 343509002840 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 343509002841 active site 343509002842 phosphorylation site [posttranslational modification] 343509002843 intermolecular recognition site; other site 343509002844 dimerization interface [polypeptide binding]; other site 343509002845 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 343509002846 DNA binding site [nucleotide binding] 343509002847 sensor protein BasS/PmrB; Provisional; Region: PRK10755 343509002848 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 343509002849 dimer interface [polypeptide binding]; other site 343509002850 phosphorylation site [posttranslational modification] 343509002851 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 343509002852 ATP binding site [chemical binding]; other site 343509002853 Mg2+ binding site [ion binding]; other site 343509002854 G-X-G motif; other site 343509002855 active site 343509002856 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 343509002857 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 343509002858 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 343509002859 DNA binding site [nucleotide binding] 343509002860 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 343509002861 dimerization interface (closed form) [polypeptide binding]; other site 343509002862 ligand binding site [chemical binding]; other site 343509002863 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 343509002864 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 343509002865 ligand binding site [chemical binding]; other site 343509002866 calcium binding site [ion binding]; other site 343509002867 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 343509002868 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 343509002869 Walker A/P-loop; other site 343509002870 ATP binding site [chemical binding]; other site 343509002871 Q-loop/lid; other site 343509002872 ABC transporter signature motif; other site 343509002873 Walker B; other site 343509002874 D-loop; other site 343509002875 H-loop/switch region; other site 343509002876 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 343509002877 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 343509002878 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 343509002879 TM-ABC transporter signature motif; other site 343509002880 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 343509002881 putative active site [active] 343509002882 malate dehydrogenase; Provisional; Region: PRK13529 343509002883 Malic enzyme, N-terminal domain; Region: malic; pfam00390 343509002884 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 343509002885 NAD(P) binding site [chemical binding]; other site 343509002886 cytidine deaminase; Provisional; Region: PRK09027 343509002887 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 343509002888 active site 343509002889 catalytic motif [active] 343509002890 Zn binding site [ion binding]; other site 343509002891 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 343509002892 active site 343509002893 catalytic motif [active] 343509002894 Zn binding site [ion binding]; other site 343509002895 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 343509002896 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 343509002897 active site 343509002898 HIGH motif; other site 343509002899 KMSKS motif; other site 343509002900 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 343509002901 tRNA binding surface [nucleotide binding]; other site 343509002902 anticodon binding site; other site 343509002903 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 343509002904 dimer interface [polypeptide binding]; other site 343509002905 putative tRNA-binding site [nucleotide binding]; other site 343509002906 antiporter inner membrane protein; Provisional; Region: PRK11670 343509002907 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 343509002908 Walker A motif; other site 343509002909 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; cl00474 343509002910 active site 343509002911 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 343509002912 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 343509002913 ATP-binding site [chemical binding]; other site 343509002914 Sugar specificity; other site 343509002915 Pyrimidine base specificity; other site 343509002916 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 343509002917 trimer interface [polypeptide binding]; other site 343509002918 active site 343509002919 putative assembly protein; Provisional; Region: PRK10833 343509002920 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 343509002921 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 343509002922 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 343509002923 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 343509002924 polysaccharide export protein Wza; Provisional; Region: PRK15078 343509002925 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 343509002926 SLBB domain; Region: SLBB; pfam10531 343509002927 Low molecular weight phosphatase family; Region: LMWPc; cd00115 343509002928 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 343509002929 active site 343509002930 tyrosine kinase; Provisional; Region: PRK11519 343509002931 Chain length determinant protein; Region: Wzz; pfam02706 343509002932 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 343509002933 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 343509002934 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 343509002935 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 343509002936 putative ADP-binding pocket [chemical binding]; other site 343509002937 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 343509002938 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 343509002939 active site 343509002940 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 343509002941 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 343509002942 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 343509002943 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 343509002944 putative ADP-binding pocket [chemical binding]; other site 343509002945 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 343509002946 Bacterial sugar transferase; Region: Bac_transf; pfam02397 343509002947 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 343509002948 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 343509002949 FeS/SAM binding site; other site 343509002950 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 343509002951 Pyruvate formate lyase 1; Region: PFL1; cd01678 343509002952 coenzyme A binding site [chemical binding]; other site 343509002953 active site 343509002954 catalytic residues [active] 343509002955 glycine loop; other site 343509002956 formate transporter; Provisional; Region: PRK10805 343509002957 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 343509002958 homodimer interface [polypeptide binding]; other site 343509002959 substrate-cofactor binding pocket; other site 343509002960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509002961 catalytic residue [active] 343509002962 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 343509002963 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 343509002964 hinge; other site 343509002965 active site 343509002966 cytidylate kinase; Provisional; Region: cmk; PRK00023 343509002967 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 343509002968 CMP-binding site; other site 343509002969 The sites determining sugar specificity; other site 343509002970 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 343509002971 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 343509002972 RNA binding site [nucleotide binding]; other site 343509002973 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 343509002974 RNA binding site [nucleotide binding]; other site 343509002975 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 343509002976 RNA binding site [nucleotide binding]; other site 343509002977 S1_RPS1_repeat_ec4: 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_ec4; cd05689 343509002978 RNA binding site [nucleotide binding]; other site 343509002979 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 343509002980 RNA binding site [nucleotide binding]; other site 343509002981 S1_RPS1_repeat_ec6: 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_ec6; cd05691 343509002982 RNA binding site [nucleotide binding]; other site 343509002983 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 343509002984 IHF dimer interface [polypeptide binding]; other site 343509002985 IHF - DNA interface [nucleotide binding]; other site 343509002986 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 343509002987 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 343509002988 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 343509002989 Walker A/P-loop; other site 343509002990 ATP binding site [chemical binding]; other site 343509002991 Q-loop/lid; other site 343509002992 ABC transporter signature motif; other site 343509002993 Walker B; other site 343509002994 D-loop; other site 343509002995 H-loop/switch region; other site 343509002996 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 343509002997 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 343509002998 Trm112p-like protein; Region: Trm112p; cl01066 343509002999 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 343509003000 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 343509003001 Ligand binding site; other site 343509003002 oligomer interface; other site 343509003003 Uncharacterized conserved protein [Function unknown]; Region: COG1434 343509003004 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 343509003005 putative active site [active] 343509003006 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 343509003007 S-adenosylmethionine binding site [chemical binding]; other site 343509003008 condesin subunit F; Provisional; Region: PRK05260 343509003009 condesin subunit E; Provisional; Region: PRK05256 343509003010 cell division protein MukB; Provisional; Region: mukB; PRK04863 343509003011 MukB N-terminal; Region: MukB; pfam04310 343509003012 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 343509003013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 343509003014 Peptidase M15; Region: Peptidase_M15_3; cl01194 343509003015 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 343509003016 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 343509003017 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 343509003018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509003019 homodimer interface [polypeptide binding]; other site 343509003020 catalytic residue [active] 343509003021 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 343509003022 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 343509003023 trimer interface [polypeptide binding]; other site 343509003024 eyelet of channel; other site 343509003025 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 343509003026 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 343509003027 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 343509003028 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 343509003029 Phage tail tube protein FII; Region: Phage_tube; cl01390 343509003030 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 343509003031 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 343509003032 putative dimer interface [polypeptide binding]; other site 343509003033 putative anticodon binding site; other site 343509003034 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 343509003035 homodimer interface [polypeptide binding]; other site 343509003036 motif 1; other site 343509003037 motif 2; other site 343509003038 active site 343509003039 motif 3; other site 343509003040 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 343509003041 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. 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; Region: PncB_like; cd01401 343509003042 active site 343509003043 aminopeptidase N; Provisional; Region: pepN; PRK14015 343509003044 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 343509003045 active site 343509003046 Zn binding site [ion binding]; other site 343509003047 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 343509003048 Dihydroorotate dehydrogenase (DHOD) class 2. 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 nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 343509003049 quinone interaction residues [chemical binding]; other site 343509003050 active site 343509003051 catalytic residues [active] 343509003052 FMN binding site [chemical binding]; other site 343509003053 substrate binding site [chemical binding]; other site 343509003054 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 343509003055 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 343509003056 MOSC domain; Region: MOSC; pfam03473 343509003057 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 343509003058 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 343509003059 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 343509003060 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 343509003061 S-adenosylmethionine binding site [chemical binding]; other site 343509003062 ABC transporter ATPase component; Reviewed; Region: PRK11147 343509003063 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509003064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509003065 Walker A/P-loop; other site 343509003066 Walker A/P-loop; other site 343509003067 ATP binding site [chemical binding]; other site 343509003068 ATP binding site [chemical binding]; other site 343509003069 Q-loop/lid; other site 343509003070 Q-loop/lid; other site 343509003071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509003072 ABC transporter signature motif; other site 343509003073 Walker B; other site 343509003074 D-loop; other site 343509003075 ABC transporter; Region: ABC_tran_2; pfam12848 343509003076 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509003077 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 343509003078 Paraquat-inducible protein A; Region: PqiA; pfam04403 343509003079 Paraquat-inducible protein A; Region: PqiA; pfam04403 343509003080 paraquat-inducible protein B; Provisional; Region: PRK10807 343509003081 mce related protein; Region: MCE; pfam02470 343509003082 mce related protein; Region: MCE; pfam02470 343509003083 mce related protein; Region: MCE; pfam02470 343509003084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 343509003085 Protein of unknown function (DUF330); Region: DUF330; pfam03886 343509003086 Ribosome modulation factor; Region: RMF; pfam04957 343509003087 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 343509003088 active site 1 [active] 343509003089 dimer interface [polypeptide binding]; other site 343509003090 active site 2 [active] 343509003091 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 343509003092 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 343509003093 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 343509003094 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509003095 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509003096 outer membrane protein A; Reviewed; Region: PRK10808 343509003097 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 343509003098 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 343509003099 ligand binding site [chemical binding]; other site 343509003100 DNA helicase IV; Provisional; Region: helD; PRK11054 343509003101 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 343509003102 Part of AAA domain; Region: AAA_19; pfam13245 343509003103 Family description; Region: UvrD_C_2; pfam13538 343509003104 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 343509003105 active site 343509003106 dimer interfaces [polypeptide binding]; other site 343509003107 catalytic residues [active] 343509003108 hypothetical protein; Provisional; Region: PRK03641 343509003109 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 343509003110 heat shock protein HspQ; Provisional; Region: PRK14129 343509003111 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 343509003112 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 343509003113 active site 343509003114 Int/Topo IB signature motif; other site 343509003115 DNA binding site [nucleotide binding] 343509003116 YccA-like proteins; Region: YccA_like; cd10433 343509003117 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 343509003118 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 343509003119 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 343509003120 Acylphosphatase; Region: Acylphosphatase; cl00551 343509003121 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 343509003122 catalytic residue [active] 343509003123 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509003124 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509003125 L,D-transpeptidase; Provisional; Region: PRK10260 343509003126 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 343509003127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509003128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509003129 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 343509003130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 343509003131 Zn2+ binding site [ion binding]; other site 343509003132 Mg2+ binding site [ion binding]; other site 343509003133 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 343509003134 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 343509003135 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 343509003136 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 343509003137 Ligand binding site; other site 343509003138 DXD motif; other site 343509003139 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 343509003140 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 343509003141 putative acyl-acceptor binding pocket; other site 343509003142 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 343509003143 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 343509003144 active site residue [active] 343509003145 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 343509003146 DinI-like family; Region: DinI; cl11630 343509003147 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 343509003148 active site 343509003149 substrate binding pocket [chemical binding]; other site 343509003150 dimer interface [polypeptide binding]; other site 343509003151 ribonuclease E; Reviewed; Region: rne; PRK10811 343509003152 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 343509003153 homodimer interface [polypeptide binding]; other site 343509003154 oligonucleotide binding site [chemical binding]; other site 343509003155 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 343509003156 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 343509003157 RNA binding surface [nucleotide binding]; other site 343509003158 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 343509003159 active site 343509003160 Maf-like protein; Region: Maf; pfam02545 343509003161 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 343509003162 active site 343509003163 dimer interface [polypeptide binding]; other site 343509003164 hypothetical protein; Provisional; Region: PRK11193 343509003165 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 343509003166 putative phosphate acyltransferase; Provisional; Region: PRK05331 343509003167 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 343509003168 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 343509003169 dimer interface [polypeptide binding]; other site 343509003170 active site 343509003171 CoA binding pocket [chemical binding]; other site 343509003172 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 343509003173 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 343509003174 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 343509003175 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 343509003176 NAD(P) binding site [chemical binding]; other site 343509003177 homotetramer interface [polypeptide binding]; other site 343509003178 homodimer interface [polypeptide binding]; other site 343509003179 active site 343509003180 acyl carrier protein; Provisional; Region: acpP; PRK00982 343509003181 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 343509003182 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 343509003183 dimer interface [polypeptide binding]; other site 343509003184 active site 343509003185 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 343509003186 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 343509003187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509003188 catalytic residue [active] 343509003189 YceG-like family; Region: YceG; pfam02618 343509003190 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 343509003191 dimerization interface [polypeptide binding]; other site 343509003192 thymidylate kinase; Validated; Region: tmk; PRK00698 343509003193 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 343509003194 TMP-binding site; other site 343509003195 ATP-binding site [chemical binding]; other site 343509003196 DNA polymerase III subunit delta'; Validated; Region: PRK07993 343509003197 DNA polymerase III subunit delta'; Validated; Region: PRK08485 343509003198 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 343509003199 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 343509003200 active site 343509003201 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 343509003202 nucleotide binding site/active site [active] 343509003203 HIT family signature motif; other site 343509003204 catalytic residue [active] 343509003205 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 343509003206 putative dimer interface [polypeptide binding]; other site 343509003207 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 343509003208 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 343509003209 thiamine kinase; Region: ycfN_thiK; TIGR02721 343509003210 active site 343509003211 substrate binding site [chemical binding]; other site 343509003212 ATP binding site [chemical binding]; other site 343509003213 hypothetical protein; Provisional; Region: PRK04940 343509003214 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 343509003215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 343509003216 hypothetical protein; Provisional; Region: PRK11280 343509003217 transcription-repair coupling factor; Provisional; Region: PRK10689 343509003218 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 343509003219 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 343509003220 ATP binding site [chemical binding]; other site 343509003221 putative Mg++ binding site [ion binding]; other site 343509003222 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 343509003223 nucleotide binding region [chemical binding]; other site 343509003224 ATP-binding site [chemical binding]; other site 343509003225 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 343509003226 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 343509003227 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 343509003228 FtsX-like permease family; Region: FtsX; pfam02687 343509003229 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 343509003230 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 343509003231 Walker A/P-loop; other site 343509003232 ATP binding site [chemical binding]; other site 343509003233 Q-loop/lid; other site 343509003234 ABC transporter signature motif; other site 343509003235 Walker B; other site 343509003236 D-loop; other site 343509003237 H-loop/switch region; other site 343509003238 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 343509003239 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 343509003240 FtsX-like permease family; Region: FtsX; pfam02687 343509003241 NAD-dependent deacetylase; Provisional; Region: PRK00481 343509003242 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 343509003243 NAD+ binding site [chemical binding]; other site 343509003244 substrate binding site [chemical binding]; other site 343509003245 Zn binding site [ion binding]; other site 343509003246 Uncharacterized conserved protein [Function unknown]; Region: COG2850 343509003247 sensor protein PhoQ; Provisional; Region: PRK10815 343509003248 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 343509003249 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 343509003250 ATP binding site [chemical binding]; other site 343509003251 Mg2+ binding site [ion binding]; other site 343509003252 G-X-G motif; other site 343509003253 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 343509003254 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 343509003255 active site 343509003256 phosphorylation site [posttranslational modification] 343509003257 intermolecular recognition site; other site 343509003258 dimerization interface [polypeptide binding]; other site 343509003259 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 343509003260 DNA binding site [nucleotide binding] 343509003261 adenylosuccinate lyase; Provisional; Region: PRK09285 343509003262 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 343509003263 tetramer interface [polypeptide binding]; other site 343509003264 active site 343509003265 putative lysogenization regulator; Reviewed; Region: PRK00218 343509003266 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 343509003267 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 343509003268 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 343509003269 nudix motif; other site 343509003270 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 343509003271 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 343509003272 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 343509003273 ERF superfamily; Region: ERF; pfam04404 343509003274 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 343509003275 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 343509003276 ssDNA binding site [nucleotide binding]; other site 343509003277 tetramer (dimer of dimers) interface [polypeptide binding]; other site 343509003278 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509003279 Phage-related protein, tail component [Function unknown]; Region: COG4723 343509003280 Prophage antirepressor [Transcription]; Region: COG3617 343509003281 BRO family, N-terminal domain; Region: Bro-N; smart01040 343509003282 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 343509003283 dimer interface [polypeptide binding]; other site 343509003284 conserved gate region; other site 343509003285 putative PBP binding loops; other site 343509003286 ABC-ATPase subunit interface; other site 343509003287 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 343509003288 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 343509003289 dimer interface [polypeptide binding]; other site 343509003290 conserved gate region; other site 343509003291 putative PBP binding loops; other site 343509003292 ABC-ATPase subunit interface; other site 343509003293 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 343509003294 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 343509003295 substrate binding pocket [chemical binding]; other site 343509003296 membrane-bound complex binding site; other site 343509003297 hinge residues; other site 343509003298 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 343509003299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509003300 Walker A/P-loop; other site 343509003301 ATP binding site [chemical binding]; other site 343509003302 Q-loop/lid; other site 343509003303 ABC transporter signature motif; other site 343509003304 Walker B; other site 343509003305 D-loop; other site 343509003306 H-loop/switch region; other site 343509003307 putative lipoprotein; Provisional; Region: PRK10533 343509003308 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 343509003309 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509003310 Predicted membrane protein [Function unknown]; Region: COG2431 343509003311 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 343509003312 DNA-binding site [nucleotide binding]; DNA binding site 343509003313 RNA-binding motif; other site 343509003314 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 343509003315 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 343509003316 Clp amino terminal domain; Region: Clp_N; pfam02861 343509003317 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 343509003318 Walker A motif; other site 343509003319 ATP binding site [chemical binding]; other site 343509003320 Walker B motif; other site 343509003321 arginine finger; other site 343509003322 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 343509003323 Walker A motif; other site 343509003324 ATP binding site [chemical binding]; other site 343509003325 Walker B motif; other site 343509003326 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 343509003327 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 343509003328 rRNA binding site [nucleotide binding]; other site 343509003329 predicted 30S ribosome binding site; other site 343509003330 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 343509003331 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 343509003332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509003333 Walker A/P-loop; other site 343509003334 ATP binding site [chemical binding]; other site 343509003335 Q-loop/lid; other site 343509003336 ABC transporter signature motif; other site 343509003337 Walker B; other site 343509003338 D-loop; other site 343509003339 H-loop/switch region; other site 343509003340 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 343509003341 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 343509003342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509003343 Walker A/P-loop; other site 343509003344 ATP binding site [chemical binding]; other site 343509003345 Q-loop/lid; other site 343509003346 ABC transporter signature motif; other site 343509003347 Walker B; other site 343509003348 D-loop; other site 343509003349 H-loop/switch region; other site 343509003350 thioredoxin reductase; Provisional; Region: PRK10262 343509003351 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 343509003352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 343509003353 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 343509003354 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 343509003355 putative DNA binding site [nucleotide binding]; other site 343509003356 putative Zn2+ binding site [ion binding]; other site 343509003357 AsnC family; Region: AsnC_trans_reg; pfam01037 343509003358 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 343509003359 DNA translocase FtsK; Provisional; Region: PRK10263 343509003360 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 343509003361 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 343509003362 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 343509003363 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 343509003364 recombination factor protein RarA; Reviewed; Region: PRK13342 343509003365 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 343509003366 Walker A motif; other site 343509003367 ATP binding site [chemical binding]; other site 343509003368 Walker B motif; other site 343509003369 arginine finger; other site 343509003370 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 343509003371 seryl-tRNA synthetase; Provisional; Region: PRK05431 343509003372 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 343509003373 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 343509003374 dimer interface [polypeptide binding]; other site 343509003375 active site 343509003376 motif 1; other site 343509003377 motif 2; other site 343509003378 motif 3; other site 343509003379 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 343509003380 active site 343509003381 tetramer interface; other site 343509003382 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 343509003383 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 343509003384 Substrate binding site; other site 343509003385 Cupin domain; Region: Cupin_2; cl17218 343509003386 phosphomannomutase CpsG; Provisional; Region: PRK15414 343509003387 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 343509003388 active site 343509003389 substrate binding site [chemical binding]; other site 343509003390 metal binding site [ion binding]; metal-binding site 343509003391 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 343509003392 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 343509003393 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 343509003394 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 343509003395 Walker A/P-loop; other site 343509003396 ATP binding site [chemical binding]; other site 343509003397 Q-loop/lid; other site 343509003398 ABC transporter signature motif; other site 343509003399 Walker B; other site 343509003400 D-loop; other site 343509003401 H-loop/switch region; other site 343509003402 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 343509003403 putative carbohydrate binding site [chemical binding]; other site 343509003404 Methyltransferase domain; Region: Methyltransf_31; pfam13847 343509003405 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 343509003406 S-adenosylmethionine binding site [chemical binding]; other site 343509003407 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 343509003408 active site 343509003409 ATP binding site [chemical binding]; other site 343509003410 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 343509003411 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 343509003412 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 343509003413 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 343509003414 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 343509003415 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 343509003416 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 343509003417 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 343509003418 putative ADP-binding pocket [chemical binding]; other site 343509003419 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 343509003420 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 343509003421 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 343509003422 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 343509003423 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 343509003424 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 343509003425 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 343509003426 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 343509003427 substrate binding site [chemical binding]; other site 343509003428 glutamase interaction surface [polypeptide binding]; other site 343509003429 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 343509003430 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 343509003431 catalytic residues [active] 343509003432 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 343509003433 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 343509003434 putative active site [active] 343509003435 oxyanion strand; other site 343509003436 catalytic triad [active] 343509003437 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 343509003438 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 343509003439 active site 343509003440 motif I; other site 343509003441 motif II; other site 343509003442 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 343509003443 putative active site pocket [active] 343509003444 4-fold oligomerization interface [polypeptide binding]; other site 343509003445 metal binding residues [ion binding]; metal-binding site 343509003446 3-fold/trimer interface [polypeptide binding]; other site 343509003447 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 343509003448 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 343509003449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509003450 homodimer interface [polypeptide binding]; other site 343509003451 catalytic residue [active] 343509003452 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 343509003453 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 343509003454 NAD binding site [chemical binding]; other site 343509003455 dimerization interface [polypeptide binding]; other site 343509003456 product binding site; other site 343509003457 substrate binding site [chemical binding]; other site 343509003458 zinc binding site [ion binding]; other site 343509003459 catalytic residues [active] 343509003460 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 343509003461 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 343509003462 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 343509003463 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 343509003464 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 343509003465 putative NAD(P) binding site [chemical binding]; other site 343509003466 exonuclease I; Provisional; Region: sbcB; PRK11779 343509003467 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 343509003468 active site 343509003469 catalytic site [active] 343509003470 substrate binding site [chemical binding]; other site 343509003471 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 343509003472 hypothetical protein; Provisional; Region: PRK05423 343509003473 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 343509003474 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 343509003475 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 343509003476 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 343509003477 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 343509003478 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 343509003479 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 343509003480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509003481 DNA-binding site [nucleotide binding]; DNA binding site 343509003482 UTRA domain; Region: UTRA; pfam07702 343509003483 Predicted amidohydrolase [General function prediction only]; Region: COG0388 343509003484 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_6; cd07584 343509003485 putative active site [active] 343509003486 catalytic triad [active] 343509003487 putative dimer interface [polypeptide binding]; other site 343509003488 Predicted membrane protein [Function unknown]; Region: COG2259 343509003489 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509003490 Winged-helix domain of essential DNA replication protein Cell division control protein (Cdc6), which mediates DNA binding; Region: Cdc6_C; cl08520 343509003491 NinB protein; Region: NinB; pfam05772 343509003492 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509003493 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 343509003494 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509003495 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509003496 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509003497 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 343509003498 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 343509003499 Cation efflux family; Region: Cation_efflux; cl00316 343509003500 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 343509003501 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 343509003502 ApbE family; Region: ApbE; pfam02424 343509003503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 343509003504 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 343509003505 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 343509003506 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509003507 VRR-NUC domain; Region: VRR_NUC; pfam08774 343509003508 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 343509003509 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 343509003510 non-specific DNA binding site [nucleotide binding]; other site 343509003511 sequence-specific DNA binding site [nucleotide binding]; other site 343509003512 salt bridge; other site 343509003513 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 343509003514 polymerase nucleotide-binding site; other site 343509003515 DNA-binding residues [nucleotide binding]; DNA binding site 343509003516 nucleotide binding site [chemical binding]; other site 343509003517 primase nucleotide-binding site [nucleotide binding]; other site 343509003518 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509003519 catalytic residues [active] 343509003520 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509003521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509003522 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509003523 VRR-NUC domain; Region: VRR_NUC; pfam08774 343509003524 PAS fold; Region: PAS_4; pfam08448 343509003525 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 343509003526 DNA binding residues [nucleotide binding] 343509003527 dimerization interface [polypeptide binding]; other site 343509003528 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509003529 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509003530 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509003531 response regulator; Provisional; Region: PRK09483 343509003532 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 343509003533 active site 343509003534 phosphorylation site [posttranslational modification] 343509003535 intermolecular recognition site; other site 343509003536 dimerization interface [polypeptide binding]; other site 343509003537 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 343509003538 DNA binding residues [nucleotide binding] 343509003539 dimerization interface [polypeptide binding]; other site 343509003540 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 343509003541 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 343509003542 GIY-YIG motif/motif A; other site 343509003543 active site 343509003544 catalytic site [active] 343509003545 putative DNA binding site [nucleotide binding]; other site 343509003546 metal binding site [ion binding]; metal-binding site 343509003547 UvrB/uvrC motif; Region: UVR; pfam02151 343509003548 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 343509003549 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 343509003550 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 343509003551 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 343509003552 dimer interface [polypeptide binding]; other site 343509003553 active site 343509003554 Int/Topo IB signature motif; other site 343509003555 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509003556 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 343509003557 DNA binding residues [nucleotide binding] 343509003558 recombination and repair protein RecT; Reviewed; Region: recT; PRK09846 343509003559 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 343509003560 DNA packaging tegument protein UL25; Provisional; Region: PHA03249 343509003561 Replication protein P; Region: Phage_lambda_P; pfam06992 343509003562 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 343509003563 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 343509003564 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509003565 hypothetical protein; Region: PHA00670 343509003566 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 343509003567 hypothetical protein; Region: PHA00662 343509003568 hypothetical protein; Region: PHA00661 343509003569 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509003570 Coenzyme A binding pocket [chemical binding]; other site 343509003571 virion protein; Provisional; Region: V; PHA02564 343509003572 structural protein; Region: PHA01972 343509003573 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 343509003574 Lysis protein S; Region: Lysis_S; pfam04971 343509003575 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509003576 catalytic residues [active] 343509003577 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 343509003578 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509003579 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 343509003580 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 343509003581 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 343509003582 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 343509003583 aromatic chitin/cellulose binding site residues [chemical binding]; other site 343509003584 terminase endonuclease subunit; Provisional; Region: M; PHA02537 343509003585 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 343509003586 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 343509003587 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 343509003588 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 343509003589 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 343509003590 putative active site [active] 343509003591 putative NTP binding site [chemical binding]; other site 343509003592 putative nucleic acid binding site [nucleotide binding]; other site 343509003593 primosomal protein DnaI; Provisional; Region: PRK02854 343509003594 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), AnFA1; Region: NGN_SP_AnfA1; cd09894 343509003595 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509003596 catalytic residues [active] 343509003597 Terminase small subunit; Region: Terminase_2; pfam03592 343509003598 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 343509003599 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509003600 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 343509003601 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 343509003602 dimer interface [polypeptide binding]; other site 343509003603 active site 343509003604 Int/Topo IB signature motif; other site 343509003605 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 343509003606 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 343509003607 sequence-specific DNA binding site [nucleotide binding]; other site 343509003608 salt bridge; other site 343509003609 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 343509003610 Catalytic site [active] 343509003611 NinB protein; Region: NinB; pfam05772 343509003612 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 343509003613 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 343509003614 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 343509003615 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 343509003616 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 343509003617 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 343509003618 Prophage antirepressor [Transcription]; Region: COG3617 343509003619 BRO family, N-terminal domain; Region: Bro-N; smart01040 343509003620 hypothetical protein; Provisional; Region: PRK10708 343509003621 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 343509003622 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 343509003623 DNA binding residues [nucleotide binding] 343509003624 dimerization interface [polypeptide binding]; other site 343509003625 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 343509003626 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 343509003627 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 343509003628 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 343509003629 active site 343509003630 homotetramer interface [polypeptide binding]; other site 343509003631 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 343509003632 Predicted transcriptional regulator [Transcription]; Region: COG3905 343509003633 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 343509003634 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 343509003635 Glutamate binding site [chemical binding]; other site 343509003636 NAD binding site [chemical binding]; other site 343509003637 catalytic residues [active] 343509003638 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 343509003639 multidrug resistance protein MdtH; Provisional; Region: PRK11646 343509003640 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 343509003641 putative substrate translocation pore; other site 343509003642 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 343509003643 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 343509003644 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 343509003645 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 343509003646 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 343509003647 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 343509003648 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 343509003649 active site 343509003650 HIGH motif; other site 343509003651 KMSK motif region; other site 343509003652 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 343509003653 tRNA binding surface [nucleotide binding]; other site 343509003654 anticodon binding site; other site 343509003655 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_4; cd07268 343509003656 putative metal binding site [ion binding]; other site 343509003657 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 343509003658 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509003659 copper homeostasis protein CutC; Provisional; Region: PRK11572 343509003660 Methyltransferase domain; Region: Methyltransf_23; pfam13489 343509003661 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 343509003662 S-adenosylmethionine binding site [chemical binding]; other site 343509003663 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 343509003664 S-adenosylmethionine binding site [chemical binding]; other site 343509003665 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 343509003666 hypothetical protein; Provisional; Region: PRK10302 343509003667 Isochorismatase family; Region: Isochorismatase; pfam00857 343509003668 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 343509003669 catalytic triad [active] 343509003670 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 343509003671 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 343509003672 dimer interface [polypeptide binding]; other site 343509003673 anticodon binding site; other site 343509003674 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 343509003675 homodimer interface [polypeptide binding]; other site 343509003676 motif 1; other site 343509003677 active site 343509003678 motif 2; other site 343509003679 GAD domain; Region: GAD; pfam02938 343509003680 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 343509003681 active site 343509003682 motif 3; other site 343509003683 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_7; cd04664 343509003684 nudix motif; other site 343509003685 hypothetical protein; Validated; Region: PRK00110 343509003686 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 343509003687 active site 343509003688 putative DNA-binding cleft [nucleotide binding]; other site 343509003689 dimer interface [polypeptide binding]; other site 343509003690 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 343509003691 RuvA N terminal domain; Region: RuvA_N; pfam01330 343509003692 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 343509003693 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 343509003694 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 343509003695 Walker A motif; other site 343509003696 ATP binding site [chemical binding]; other site 343509003697 Walker B motif; other site 343509003698 arginine finger; other site 343509003699 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 343509003700 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 343509003701 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 343509003702 putative peptidase; Provisional; Region: PRK11649 343509003703 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 343509003704 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 343509003705 Peptidase family M23; Region: Peptidase_M23; pfam01551 343509003706 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 343509003707 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 343509003708 putative acyl-acceptor binding pocket; other site 343509003709 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 343509003710 radical SAM protein, TIGR01212 family; Region: TIGR01212 343509003711 pyruvate kinase; Provisional; Region: PRK05826 343509003712 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 343509003713 domain interfaces; other site 343509003714 active site 343509003715 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 343509003716 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 343509003717 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 343509003718 putative active site [active] 343509003719 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 343509003720 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 343509003721 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 343509003722 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 343509003723 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 343509003724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 343509003725 ATP-grasp domain; Region: ATP-grasp; pfam02222 343509003726 protease 2; Provisional; Region: PRK10115 343509003727 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 343509003728 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 343509003729 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 343509003730 Ferritin-like domain; Region: Ferritin; pfam00210 343509003731 ferroxidase diiron center [ion binding]; other site 343509003732 CopC domain; Region: CopC; cl01012 343509003733 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 343509003734 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 343509003735 two component system sensor kinase SsrB; Provisional; Region: PRK15369 343509003736 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 343509003737 active site 343509003738 phosphorylation site [posttranslational modification] 343509003739 intermolecular recognition site; other site 343509003740 dimerization interface [polypeptide binding]; other site 343509003741 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 343509003742 DNA binding residues [nucleotide binding] 343509003743 dimerization interface [polypeptide binding]; other site 343509003744 two component system sensor kinase SsrA; Provisional; Region: PRK15347 343509003745 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 343509003746 dimerization interface [polypeptide binding]; other site 343509003747 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 343509003748 dimer interface [polypeptide binding]; other site 343509003749 phosphorylation site [posttranslational modification] 343509003750 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 343509003751 ATP binding site [chemical binding]; other site 343509003752 Mg2+ binding site [ion binding]; other site 343509003753 G-X-G motif; other site 343509003754 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 343509003755 active site 343509003756 phosphorylation site [posttranslational modification] 343509003757 intermolecular recognition site; other site 343509003758 dimerization interface [polypeptide binding]; other site 343509003759 pathogenicity island chaperone protein SpiC; Provisional; Region: PRK15368 343509003760 outer membrane secretin SsaC; Provisional; Region: PRK15346 343509003761 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 343509003762 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 343509003763 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 343509003764 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 343509003765 type III secretion system protein SsaD; Provisional; Region: PRK15367 343509003766 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 343509003767 type III secretion system chaperone SsaE; Provisional; Region: PRK15366 343509003768 type III secretion system chaperone SseA; Provisional; Region: PRK15365 343509003769 EspA-like secreted protein; Region: EspA; pfam03433 343509003770 pathogenicity island 2 chaperone protein SscA; Provisional; Region: PRK15363 343509003771 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 343509003772 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 343509003773 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 343509003774 type III secretion system chaperone protein SscB; Provisional; Region: PRK15359 343509003775 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 343509003776 binding surface 343509003777 TPR motif; other site 343509003778 type III secretion system needle protein SsaG; Provisional; Region: PRK15344 343509003779 type III secretion system protein, SsaH family; Region: type_III_ssaH; TIGR02498 343509003780 Type III secretion needle MxiH like; Region: MxiH; pfam09392 343509003781 type III secretion system lipoprotein SsaJ; Provisional; Region: PRK15348 343509003782 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 343509003783 type III secretion system protein SsaK; Provisional; Region: PRK15354 343509003784 type III secretion system protein SsaL; Provisional; Region: PRK15345 343509003785 HrpJ-like domain; Region: HrpJ; cl15454 343509003786 type III secretion system protein SsaM; Provisional; Region: PRK15353 343509003787 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 343509003788 FHIPEP family; Region: FHIPEP; pfam00771 343509003789 type III secretion system ATPase SsaN; Validated; Region: PRK07594 343509003790 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 343509003791 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 343509003792 Walker A motif/ATP binding site; other site 343509003793 Walker B motif; other site 343509003794 type III secretion system protein SsaP; Provisional; Region: PRK15351 343509003795 type III secretion system protein SsaQ; Validated; Region: PRK08035 343509003796 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 343509003797 type III secretion system protein YscR; Provisional; Region: PRK12797 343509003798 type III secretion system protein SsaS; Provisional; Region: PRK15350 343509003799 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 343509003800 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 343509003801 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 343509003802 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 343509003803 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_18; cd08357 343509003804 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 343509003805 putative metal binding site [ion binding]; other site 343509003806 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 343509003807 putative active site [active] 343509003808 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 343509003809 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 343509003810 substrate binding pocket [chemical binding]; other site 343509003811 membrane-bound complex binding site; other site 343509003812 hinge residues; other site 343509003813 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 343509003814 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 343509003815 GAF domain; Region: GAF_2; pfam13185 343509003816 ProP expression regulator; Provisional; Region: PRK04950 343509003817 ProQ/FINO family; Region: ProQ; smart00945 343509003818 carboxy-terminal protease; Provisional; Region: PRK11186 343509003819 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 343509003820 protein binding site [polypeptide binding]; other site 343509003821 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 343509003822 Catalytic dyad [active] 343509003823 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 343509003824 heat shock protein HtpX; Provisional; Region: PRK05457 343509003825 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 343509003826 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 343509003827 dimerization interface [polypeptide binding]; other site 343509003828 putative Zn2+ binding site [ion binding]; other site 343509003829 putative DNA binding site [nucleotide binding]; other site 343509003830 Bacterial transcriptional regulator; Region: IclR; pfam01614 343509003831 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 343509003832 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 343509003833 DNA-binding site [nucleotide binding]; DNA binding site 343509003834 RNA-binding motif; other site 343509003835 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 343509003836 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 343509003837 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 343509003838 S-adenosylmethionine binding site [chemical binding]; other site 343509003839 hypothetical protein; Provisional; Region: PRK11469 343509003840 Domain of unknown function DUF; Region: DUF204; pfam02659 343509003841 Domain of unknown function DUF; Region: DUF204; pfam02659 343509003842 hypothetical protein; Provisional; Region: PRK02913 343509003843 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 343509003844 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 343509003845 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 343509003846 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 343509003847 active pocket/dimerization site; other site 343509003848 active site 343509003849 phosphorylation site [posttranslational modification] 343509003850 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 343509003851 active site 343509003852 phosphorylation site [posttranslational modification] 343509003853 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 343509003854 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 343509003855 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 343509003856 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 343509003857 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 343509003858 chorismate binding enzyme; Region: Chorismate_bind; cl10555 343509003859 hypothetical protein; Provisional; Region: PRK05114 343509003860 This group of proteins belong to a large family of YjgF/YER057c/UK114-like 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...; Region: YjgF_YER057c_UK114_like_2; cd06150 343509003861 homotrimer interaction site [polypeptide binding]; other site 343509003862 putative active site [active] 343509003863 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 343509003864 Glycoprotease family; Region: Peptidase_M22; pfam00814 343509003865 ribonuclease D; Provisional; Region: PRK10829 343509003866 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 343509003867 catalytic site [active] 343509003868 putative active site [active] 343509003869 putative substrate binding site [chemical binding]; other site 343509003870 Helicase and RNase D C-terminal; Region: HRDC; smart00341 343509003871 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 343509003872 cell division inhibitor MinD; Provisional; Region: PRK10818 343509003873 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 343509003874 Switch I; other site 343509003875 Switch II; other site 343509003876 septum formation inhibitor; Reviewed; Region: minC; PRK03511 343509003877 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 343509003878 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 343509003879 YcgL domain; Region: YcgL; cl01189 343509003880 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 343509003881 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 343509003882 hypothetical protein; Provisional; Region: PRK05170 343509003883 disulfide bond formation protein B; Provisional; Region: PRK01749 343509003884 SpoVR family protein; Provisional; Region: PRK11767 343509003885 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 343509003886 alanine racemase; Reviewed; Region: dadX; PRK03646 343509003887 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 343509003888 active site 343509003889 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 343509003890 substrate binding site [chemical binding]; other site 343509003891 catalytic residues [active] 343509003892 dimer interface [polypeptide binding]; other site 343509003893 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 343509003894 TrkA-C domain; Region: TrkA_C; pfam02080 343509003895 Transporter associated domain; Region: CorC_HlyC; smart01091 343509003896 hypothetical protein; Provisional; Region: PRK05325 343509003897 PrkA family serine protein kinase; Provisional; Region: PRK15455 343509003898 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 343509003899 Walker A motif; other site 343509003900 ATP binding site [chemical binding]; other site 343509003901 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 343509003902 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 343509003903 active site 343509003904 phosphate binding residues; other site 343509003905 catalytic residues [active] 343509003906 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 343509003907 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 343509003908 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 343509003909 methionine sulfoxide reductase B; Provisional; Region: PRK00222 343509003910 SelR domain; Region: SelR; pfam01641 343509003911 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 343509003912 protease 4; Provisional; Region: PRK10949 343509003913 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 343509003914 tandem repeat interface [polypeptide binding]; other site 343509003915 oligomer interface [polypeptide binding]; other site 343509003916 active site residues [active] 343509003917 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 343509003918 tandem repeat interface [polypeptide binding]; other site 343509003919 oligomer interface [polypeptide binding]; other site 343509003920 active site residues [active] 343509003921 virion protein; Provisional; Region: V; PHA02564 343509003922 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509003923 Acyltransferase family; Region: Acyl_transf_3; pfam01757 343509003924 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 343509003925 putative FMN binding site [chemical binding]; other site 343509003926 DNA topoisomerase III; Provisional; Region: PRK07726 343509003927 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 343509003928 active site 343509003929 putative interdomain interaction site [polypeptide binding]; other site 343509003930 putative metal-binding site [ion binding]; other site 343509003931 putative nucleotide binding site [chemical binding]; other site 343509003932 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 343509003933 domain I; other site 343509003934 DNA binding groove [nucleotide binding] 343509003935 phosphate binding site [ion binding]; other site 343509003936 domain II; other site 343509003937 domain III; other site 343509003938 nucleotide binding site [chemical binding]; other site 343509003939 catalytic site [active] 343509003940 domain IV; other site 343509003941 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 343509003942 active site 343509003943 8-oxo-dGMP binding site [chemical binding]; other site 343509003944 nudix motif; other site 343509003945 metal binding site [ion binding]; metal-binding site 343509003946 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 343509003947 putative catalytic site [active] 343509003948 putative phosphate binding site [ion binding]; other site 343509003949 active site 343509003950 metal binding site A [ion binding]; metal-binding site 343509003951 DNA binding site [nucleotide binding] 343509003952 putative AP binding site [nucleotide binding]; other site 343509003953 putative metal binding site B [ion binding]; other site 343509003954 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 343509003955 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 343509003956 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 343509003957 putative active site [active] 343509003958 putative substrate binding site [chemical binding]; other site 343509003959 putative cosubstrate binding site; other site 343509003960 catalytic site [active] 343509003961 hypothetical protein; Provisional; Region: PRK01617 343509003962 SEC-C motif; Region: SEC-C; pfam02810 343509003963 SEC-C motif; Region: SEC-C; pfam02810 343509003964 Response regulator receiver domain; Region: Response_reg; pfam00072 343509003965 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 343509003966 active site 343509003967 phosphorylation site [posttranslational modification] 343509003968 intermolecular recognition site; other site 343509003969 dimerization interface [polypeptide binding]; other site 343509003970 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 343509003971 active site 343509003972 tetramer interface; other site 343509003973 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 343509003974 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 343509003975 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 343509003976 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 343509003977 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 343509003978 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 343509003979 putative NAD(P) binding site [chemical binding]; other site 343509003980 active site 343509003981 putative substrate binding site [chemical binding]; other site 343509003982 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 343509003983 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 343509003984 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 343509003985 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 343509003986 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 343509003987 putative catalytic cysteine [active] 343509003988 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 343509003989 putative active site [active] 343509003990 metal binding site [ion binding]; metal-binding site 343509003991 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 343509003992 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 343509003993 peptide binding site [polypeptide binding]; other site 343509003994 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 343509003995 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 343509003996 dimer interface [polypeptide binding]; other site 343509003997 conserved gate region; other site 343509003998 putative PBP binding loops; other site 343509003999 ABC-ATPase subunit interface; other site 343509004000 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 343509004001 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 343509004002 dimer interface [polypeptide binding]; other site 343509004003 conserved gate region; other site 343509004004 putative PBP binding loops; other site 343509004005 ABC-ATPase subunit interface; other site 343509004006 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 343509004007 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509004008 Walker A/P-loop; other site 343509004009 ATP binding site [chemical binding]; other site 343509004010 Q-loop/lid; other site 343509004011 ABC transporter signature motif; other site 343509004012 Walker B; other site 343509004013 D-loop; other site 343509004014 H-loop/switch region; other site 343509004015 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 343509004016 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 343509004017 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509004018 Walker A/P-loop; other site 343509004019 ATP binding site [chemical binding]; other site 343509004020 Q-loop/lid; other site 343509004021 ABC transporter signature motif; other site 343509004022 Walker B; other site 343509004023 D-loop; other site 343509004024 H-loop/switch region; other site 343509004025 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 343509004026 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 343509004027 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 343509004028 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 343509004029 putative active site [active] 343509004030 catalytic site [active] 343509004031 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 343509004032 putative active site [active] 343509004033 catalytic site [active] 343509004034 YciI-like protein; Reviewed; Region: PRK11370 343509004035 transport protein TonB; Provisional; Region: PRK10819 343509004036 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 343509004037 intracellular septation protein A; Reviewed; Region: PRK00259 343509004038 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 343509004039 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 343509004040 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509004041 catalytic residues [active] 343509004042 Phage terminase large subunit; Region: Terminase_3; cl12054 343509004043 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 343509004044 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 343509004045 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509004046 hypothetical protein; Provisional; Region: PRK09956 343509004047 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509004048 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 343509004049 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 343509004050 substrate binding site [chemical binding]; other site 343509004051 active site 343509004052 catalytic residues [active] 343509004053 heterodimer interface [polypeptide binding]; other site 343509004054 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 343509004055 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 343509004056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509004057 catalytic residue [active] 343509004058 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 343509004059 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 343509004060 active site 343509004061 ribulose/triose binding site [chemical binding]; other site 343509004062 phosphate binding site [ion binding]; other site 343509004063 substrate (anthranilate) binding pocket [chemical binding]; other site 343509004064 product (indole) binding pocket [chemical binding]; other site 343509004065 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 343509004066 active site 343509004067 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 343509004068 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 343509004069 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 343509004070 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 343509004071 Glutamine amidotransferase class-I; Region: GATase; pfam00117 343509004072 glutamine binding [chemical binding]; other site 343509004073 catalytic triad [active] 343509004074 anthranilate synthase component I; Provisional; Region: PRK13564 343509004075 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 343509004076 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 343509004077 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 343509004078 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 343509004079 active site 343509004080 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 343509004081 hypothetical protein; Provisional; Region: PRK11630 343509004082 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 343509004083 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 343509004084 RNA binding surface [nucleotide binding]; other site 343509004085 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 343509004086 probable active site [active] 343509004087 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 343509004088 putative inner membrane peptidase; Provisional; Region: PRK11778 343509004089 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 343509004090 tandem repeat interface [polypeptide binding]; other site 343509004091 oligomer interface [polypeptide binding]; other site 343509004092 active site residues [active] 343509004093 hypothetical protein; Provisional; Region: PRK11037 343509004094 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 343509004095 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 343509004096 active site 343509004097 interdomain interaction site; other site 343509004098 putative metal-binding site [ion binding]; other site 343509004099 nucleotide binding site [chemical binding]; other site 343509004100 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 343509004101 domain I; other site 343509004102 DNA binding groove [nucleotide binding] 343509004103 phosphate binding site [ion binding]; other site 343509004104 domain II; other site 343509004105 domain III; other site 343509004106 nucleotide binding site [chemical binding]; other site 343509004107 catalytic site [active] 343509004108 domain IV; other site 343509004109 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 343509004110 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 343509004111 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 343509004112 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 343509004113 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 343509004114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509004115 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; cl11398 343509004116 dimerization interface [polypeptide binding]; other site 343509004117 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 343509004118 dimerization interface [polypeptide binding]; other site 343509004119 active site 343509004120 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 343509004121 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 343509004122 active site 343509004123 Predicted membrane protein [Function unknown]; Region: COG3771 343509004124 tetratricopeptide repeat protein; Provisional; Region: PRK11788 343509004125 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 343509004126 binding surface 343509004127 TPR motif; other site 343509004128 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 343509004129 active site 343509004130 dimer interface [polypeptide binding]; other site 343509004131 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 343509004132 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 343509004133 intersubunit interface [polypeptide binding]; other site 343509004134 active site 343509004135 Zn2+ binding site [ion binding]; other site 343509004136 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 343509004137 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 343509004138 YniB-like protein; Region: YniB; pfam14002 343509004139 Fructosamine kinase; Region: Fructosamin_kin; cl17579 343509004140 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 343509004141 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 343509004142 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 343509004143 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 343509004144 active site 343509004145 dimer interface [polypeptide binding]; other site 343509004146 motif 1; other site 343509004147 motif 2; other site 343509004148 motif 3; other site 343509004149 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 343509004150 anticodon binding site; other site 343509004151 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 343509004152 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 343509004153 23S rRNA binding site [nucleotide binding]; other site 343509004154 L21 binding site [polypeptide binding]; other site 343509004155 L13 binding site [polypeptide binding]; other site 343509004156 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 343509004157 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 343509004158 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 343509004159 dimer interface [polypeptide binding]; other site 343509004160 motif 1; other site 343509004161 active site 343509004162 motif 2; other site 343509004163 motif 3; other site 343509004164 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 343509004165 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 343509004166 putative tRNA-binding site [nucleotide binding]; other site 343509004167 B3/4 domain; Region: B3_4; pfam03483 343509004168 tRNA synthetase B5 domain; Region: B5; smart00874 343509004169 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 343509004170 dimer interface [polypeptide binding]; other site 343509004171 motif 1; other site 343509004172 motif 3; other site 343509004173 motif 2; other site 343509004174 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 343509004175 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 343509004176 IHF dimer interface [polypeptide binding]; other site 343509004177 IHF - DNA interface [nucleotide binding]; other site 343509004178 NlpC/P60 family; Region: NLPC_P60; pfam00877 343509004179 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 343509004180 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 343509004181 PEP synthetase regulatory protein; Provisional; Region: PRK05339 343509004182 phosphoenolpyruvate synthase; Validated; Region: PRK06464 343509004183 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 343509004184 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 343509004185 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 343509004186 putative inner membrane protein; Provisional; Region: PRK10983 343509004187 Domain of unknown function DUF20; Region: UPF0118; pfam01594 343509004188 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 343509004189 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 343509004190 putative ABC transporter; Region: ycf24; CHL00085 343509004191 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 343509004192 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 343509004193 Walker A/P-loop; other site 343509004194 ATP binding site [chemical binding]; other site 343509004195 Q-loop/lid; other site 343509004196 ABC transporter signature motif; other site 343509004197 Walker B; other site 343509004198 D-loop; other site 343509004199 H-loop/switch region; other site 343509004200 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 343509004201 FeS assembly protein SufD; Region: sufD; TIGR01981 343509004202 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 343509004203 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 343509004204 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509004205 catalytic residue [active] 343509004206 cysteine desufuration protein SufE; Provisional; Region: PRK09296 343509004207 murein lipoprotein; Provisional; Region: PRK15396 343509004208 pyruvate kinase; Provisional; Region: PRK09206 343509004209 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 343509004210 domain interfaces; other site 343509004211 active site 343509004212 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 343509004213 Lumazine binding domain; Region: Lum_binding; pfam00677 343509004214 Lumazine binding domain; Region: Lum_binding; pfam00677 343509004215 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 343509004216 putative GSH binding site [chemical binding]; other site 343509004217 catalytic residues [active] 343509004218 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 343509004219 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 343509004220 dimer interface [polypeptide binding]; other site 343509004221 catalytic site [active] 343509004222 putative active site [active] 343509004223 putative substrate binding site [chemical binding]; other site 343509004224 Predicted Fe-S protein [General function prediction only]; Region: COG3313 343509004225 transcriptional regulator SlyA; Provisional; Region: PRK03573 343509004226 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 343509004227 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 343509004228 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 343509004229 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 343509004230 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 343509004231 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 343509004232 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 343509004233 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 343509004234 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 343509004235 active site 343509004236 HIGH motif; other site 343509004237 dimer interface [polypeptide binding]; other site 343509004238 KMSKS motif; other site 343509004239 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 343509004240 RNA binding surface [nucleotide binding]; other site 343509004241 endonuclease III; Provisional; Region: PRK10702 343509004242 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 343509004243 minor groove reading motif; other site 343509004244 helix-hairpin-helix signature motif; other site 343509004245 substrate binding pocket [chemical binding]; other site 343509004246 active site 343509004247 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 343509004248 electron transport complex RsxE subunit; Provisional; Region: PRK12405 343509004249 electron transport complex protein RnfG; Validated; Region: PRK01908 343509004250 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 343509004251 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 343509004252 SLBB domain; Region: SLBB; pfam10531 343509004253 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 343509004254 ferredoxin; Provisional; Region: PRK08764 343509004255 Putative Fe-S cluster; Region: FeS; cl17515 343509004256 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 343509004257 electron transport complex protein RsxA; Provisional; Region: PRK05151 343509004258 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 343509004259 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 343509004260 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 343509004261 macrolide transporter subunit MacA; Provisional; Region: PRK11578 343509004262 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 343509004263 HlyD family secretion protein; Region: HlyD_3; pfam13437 343509004264 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 343509004265 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 343509004266 Walker A/P-loop; other site 343509004267 ATP binding site [chemical binding]; other site 343509004268 Q-loop/lid; other site 343509004269 ABC transporter signature motif; other site 343509004270 Walker B; other site 343509004271 D-loop; other site 343509004272 H-loop/switch region; other site 343509004273 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 343509004274 FtsX-like permease family; Region: FtsX; pfam02687 343509004275 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 343509004276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 343509004277 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 343509004278 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 343509004279 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 343509004280 fumarate hydratase; Reviewed; Region: fumC; PRK00485 343509004281 Class II fumarases; Region: Fumarase_classII; cd01362 343509004282 active site 343509004283 tetramer interface [polypeptide binding]; other site 343509004284 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 343509004285 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 343509004286 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 343509004287 putative substrate translocation pore; other site 343509004288 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 343509004289 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 343509004290 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 343509004291 AAA domain; Region: AAA_26; pfam13500 343509004292 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 343509004293 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 343509004294 hypothetical protein; Provisional; Region: PRK13659 343509004295 hypothetical protein; Provisional; Region: PRK02237 343509004296 malonic semialdehyde reductase; Provisional; Region: PRK10538 343509004297 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 343509004298 putative NAD(P) binding site [chemical binding]; other site 343509004299 homodimer interface [polypeptide binding]; other site 343509004300 homotetramer interface [polypeptide binding]; other site 343509004301 active site 343509004302 guanine deaminase; Provisional; Region: PRK09228 343509004303 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 343509004304 active site 343509004305 autotransport protein MisL; Provisional; Region: PRK15313 343509004306 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 343509004307 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 343509004308 active site 343509004309 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 343509004310 aromatic chitin/cellulose binding site residues [chemical binding]; other site 343509004311 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 343509004312 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 343509004313 Predicted amidohydrolase [General function prediction only]; Region: COG0388 343509004314 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_6; cd07584 343509004315 putative active site [active] 343509004316 catalytic triad [active] 343509004317 putative dimer interface [polypeptide binding]; other site 343509004318 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 343509004319 Na binding site [ion binding]; other site 343509004320 PAS fold; Region: PAS_4; pfam08448 343509004321 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509004322 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 343509004323 DNA binding residues [nucleotide binding] 343509004324 dimerization interface [polypeptide binding]; other site 343509004325 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509004326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509004327 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509004328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 343509004329 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 343509004330 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 343509004331 ligand binding site [chemical binding]; other site 343509004332 flexible hinge region; other site 343509004333 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 343509004334 putative switch regulator; other site 343509004335 non-specific DNA interactions [nucleotide binding]; other site 343509004336 DNA binding site [nucleotide binding] 343509004337 sequence specific DNA binding site [nucleotide binding]; other site 343509004338 putative cAMP binding site [chemical binding]; other site 343509004339 universal stress protein UspE; Provisional; Region: PRK11175 343509004340 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 343509004341 Ligand Binding Site [chemical binding]; other site 343509004342 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 343509004343 Ligand Binding Site [chemical binding]; other site 343509004344 classical (c) SDRs; Region: SDR_c; cd05233 343509004345 NAD(P) binding site [chemical binding]; other site 343509004346 active site 343509004347 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 343509004348 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 343509004349 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 343509004350 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 343509004351 ligand binding site [chemical binding]; other site 343509004352 homodimer interface [polypeptide binding]; other site 343509004353 NAD(P) binding site [chemical binding]; other site 343509004354 trimer interface B [polypeptide binding]; other site 343509004355 trimer interface A [polypeptide binding]; other site 343509004356 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 343509004357 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 343509004358 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 343509004359 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 343509004360 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 343509004361 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 343509004362 ATP binding site [chemical binding]; other site 343509004363 putative Mg++ binding site [ion binding]; other site 343509004364 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 343509004365 nucleotide binding region [chemical binding]; other site 343509004366 ATP-binding site [chemical binding]; other site 343509004367 Helicase associated domain (HA2); Region: HA2; pfam04408 343509004368 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 343509004369 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 343509004370 azoreductase; Reviewed; Region: PRK00170 343509004371 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 343509004372 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 343509004373 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 343509004374 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 343509004375 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 343509004376 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 343509004377 SopA-like central domain; Region: SopA; pfam13981 343509004378 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 343509004379 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 343509004380 Ligand Binding Site [chemical binding]; other site 343509004381 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 343509004382 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 343509004383 peptide binding site [polypeptide binding]; other site 343509004384 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 343509004385 dimer interface [polypeptide binding]; other site 343509004386 catalytic triad [active] 343509004387 peroxidatic and resolving cysteines [active] 343509004388 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 343509004389 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 343509004390 putative aromatic amino acid binding site; other site 343509004391 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 343509004392 putative active site [active] 343509004393 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 343509004394 Walker A motif; other site 343509004395 ATP binding site [chemical binding]; other site 343509004396 Walker B motif; other site 343509004397 arginine finger; other site 343509004398 hypothetical protein; Provisional; Region: PRK05415 343509004399 Domain of unknown function (DUF697); Region: DUF697; cl12064 343509004400 Phage shock protein B; Region: PspB; cl05946 343509004401 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 343509004402 phage shock protein C; Region: phageshock_pspC; TIGR02978 343509004403 phage shock protein PspA; Provisional; Region: PRK10698 343509004404 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 343509004405 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 343509004406 Walker A motif; other site 343509004407 ATP binding site [chemical binding]; other site 343509004408 Walker B motif; other site 343509004409 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 343509004410 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 343509004411 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 343509004412 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 343509004413 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 343509004414 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 343509004415 peptide binding site [polypeptide binding]; other site 343509004416 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 343509004417 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 343509004418 dimer interface [polypeptide binding]; other site 343509004419 conserved gate region; other site 343509004420 putative PBP binding loops; other site 343509004421 ABC-ATPase subunit interface; other site 343509004422 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509004423 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 343509004424 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 343509004425 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 343509004426 dimer interface [polypeptide binding]; other site 343509004427 conserved gate region; other site 343509004428 putative PBP binding loops; other site 343509004429 ABC-ATPase subunit interface; other site 343509004430 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 343509004431 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509004432 Walker A/P-loop; other site 343509004433 ATP binding site [chemical binding]; other site 343509004434 Q-loop/lid; other site 343509004435 ABC transporter signature motif; other site 343509004436 Walker B; other site 343509004437 D-loop; other site 343509004438 H-loop/switch region; other site 343509004439 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 343509004440 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 343509004441 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 343509004442 Walker A/P-loop; other site 343509004443 ATP binding site [chemical binding]; other site 343509004444 Q-loop/lid; other site 343509004445 ABC transporter signature motif; other site 343509004446 Walker B; other site 343509004447 D-loop; other site 343509004448 H-loop/switch region; other site 343509004449 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 343509004450 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 343509004451 NAD binding site [chemical binding]; other site 343509004452 homotetramer interface [polypeptide binding]; other site 343509004453 homodimer interface [polypeptide binding]; other site 343509004454 substrate binding site [chemical binding]; other site 343509004455 active site 343509004456 exoribonuclease II; Provisional; Region: PRK05054 343509004457 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 343509004458 RNB domain; Region: RNB; pfam00773 343509004459 S1 RNA binding domain; Region: S1; pfam00575 343509004460 Chitin binding domain; Region: Chitin_bind_3; pfam03067 343509004461 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 343509004462 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 343509004463 metal binding site [ion binding]; metal-binding site 343509004464 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 343509004465 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 343509004466 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 343509004467 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 343509004468 ABC-ATPase subunit interface; other site 343509004469 dimer interface [polypeptide binding]; other site 343509004470 putative PBP binding regions; other site 343509004471 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 343509004472 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 343509004473 ABC-ATPase subunit interface; other site 343509004474 dimer interface [polypeptide binding]; other site 343509004475 putative PBP binding regions; other site 343509004476 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 343509004477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 343509004478 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 343509004479 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 343509004480 dimer interface [polypeptide binding]; other site 343509004481 catalytic triad [active] 343509004482 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-1; cd12808 343509004483 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 343509004484 catalytic site [active] 343509004485 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 343509004486 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 343509004487 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 343509004488 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 343509004489 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 343509004490 FAD binding pocket [chemical binding]; other site 343509004491 FAD binding motif [chemical binding]; other site 343509004492 phosphate binding motif [ion binding]; other site 343509004493 NAD binding pocket [chemical binding]; other site 343509004494 Spore Coat Protein U domain; Region: SCPU; pfam05229 343509004495 Spore Coat Protein U domain; Region: SCPU; cl02253 343509004496 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 343509004497 dimer interface [polypeptide binding]; other site 343509004498 active site 343509004499 Schiff base residues; other site 343509004500 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 343509004501 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 343509004502 nucleotidyl binding site; other site 343509004503 metal binding site [ion binding]; metal-binding site 343509004504 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509004505 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 343509004506 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 343509004507 substrate binding site [chemical binding]; other site 343509004508 putative arabinose transporter; Provisional; Region: PRK03545 343509004509 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 343509004510 putative substrate translocation pore; other site 343509004511 Response regulator receiver domain; Region: Response_reg; pfam00072 343509004512 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 343509004513 active site 343509004514 phosphorylation site [posttranslational modification] 343509004515 intermolecular recognition site; other site 343509004516 dimerization interface [polypeptide binding]; other site 343509004517 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; cl17355 343509004518 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 343509004519 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 343509004520 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 343509004521 intersubunit interface [polypeptide binding]; other site 343509004522 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 343509004523 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 343509004524 ABC-ATPase subunit interface; other site 343509004525 dimer interface [polypeptide binding]; other site 343509004526 putative PBP binding regions; other site 343509004527 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 343509004528 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 343509004529 Walker A/P-loop; other site 343509004530 ATP binding site [chemical binding]; other site 343509004531 Q-loop/lid; other site 343509004532 ABC transporter signature motif; other site 343509004533 Walker B; other site 343509004534 D-loop; other site 343509004535 H-loop/switch region; other site 343509004536 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; cl17355 343509004537 DNA binding site [nucleotide binding] 343509004538 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 343509004539 putative FMN binding site [chemical binding]; other site 343509004540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 343509004541 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509004542 Walker A/P-loop; other site 343509004543 ATP binding site [chemical binding]; other site 343509004544 Q-loop/lid; other site 343509004545 ABC transporter signature motif; other site 343509004546 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 343509004547 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 343509004548 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 343509004549 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 343509004550 catalytic loop [active] 343509004551 iron binding site [ion binding]; other site 343509004552 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 343509004553 Iron-sulfur protein interface; other site 343509004554 proximal quinone binding site [chemical binding]; other site 343509004555 C-subunit interface; other site 343509004556 distal quinone binding site; other site 343509004557 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 343509004558 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 343509004559 manganese transport regulator MntR; Provisional; Region: PRK11050 343509004560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509004561 DNA-binding site [nucleotide binding]; DNA binding site 343509004562 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 343509004563 hypothetical protein; Provisional; Region: PRK06185 343509004564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 343509004565 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 343509004566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 343509004567 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 343509004568 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 343509004569 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 343509004570 Phage terminase large subunit; Region: Terminase_3; cl12054 343509004571 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509004572 catalytic residues [active] 343509004573 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509004574 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 343509004575 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 343509004576 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 343509004577 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509004578 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 343509004579 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 343509004580 Phage tail tube protein FII; Region: Phage_tube; pfam04985 343509004581 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 343509004582 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 343509004583 putative substrate translocation pore; other site 343509004584 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 343509004585 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 343509004586 RNA binding surface [nucleotide binding]; other site 343509004587 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 343509004588 active site 343509004589 uracil binding [chemical binding]; other site 343509004590 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 343509004591 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 343509004592 ATP binding site [chemical binding]; other site 343509004593 putative Mg++ binding site [ion binding]; other site 343509004594 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 343509004595 5S rRNA interface [nucleotide binding]; other site 343509004596 CTC domain interface [polypeptide binding]; other site 343509004597 L16 interface [polypeptide binding]; other site 343509004598 Nucleoid-associated protein [General function prediction only]; Region: COG3081 343509004599 nucleoid-associated protein NdpA; Validated; Region: PRK00378 343509004600 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 343509004601 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 343509004602 Sulfatase; Region: Sulfatase; cl17466 343509004603 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 343509004604 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 343509004605 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 343509004606 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 343509004607 eyelet of channel; other site 343509004608 trimer interface [polypeptide binding]; other site 343509004609 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 343509004610 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 343509004611 dimer interface [polypeptide binding]; other site 343509004612 phosphorylation site [posttranslational modification] 343509004613 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 343509004614 ATP binding site [chemical binding]; other site 343509004615 G-X-G motif; other site 343509004616 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 343509004617 putative binding surface; other site 343509004618 active site 343509004619 transcriptional regulator RcsB; Provisional; Region: PRK10840 343509004620 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 343509004621 active site 343509004622 phosphorylation site [posttranslational modification] 343509004623 intermolecular recognition site; other site 343509004624 dimerization interface [polypeptide binding]; other site 343509004625 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 343509004626 DNA binding residues [nucleotide binding] 343509004627 dimerization interface [polypeptide binding]; other site 343509004628 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 343509004629 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 343509004630 dimer interface [polypeptide binding]; other site 343509004631 phosphorylation site [posttranslational modification] 343509004632 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 343509004633 ATP binding site [chemical binding]; other site 343509004634 Mg2+ binding site [ion binding]; other site 343509004635 G-X-G motif; other site 343509004636 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 343509004637 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 343509004638 active site 343509004639 phosphorylation site [posttranslational modification] 343509004640 intermolecular recognition site; other site 343509004641 dimerization interface [polypeptide binding]; other site 343509004642 DNA gyrase subunit A; Validated; Region: PRK05560 343509004643 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 343509004644 CAP-like domain; other site 343509004645 active site 343509004646 primary dimer interface [polypeptide binding]; other site 343509004647 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 343509004648 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 343509004649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 343509004650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 343509004651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 343509004652 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 343509004653 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 343509004654 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 343509004655 S-adenosylmethionine binding site [chemical binding]; other site 343509004656 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 343509004657 ATP cone domain; Region: ATP-cone; pfam03477 343509004658 Class I ribonucleotide reductase; Region: RNR_I; cd01679 343509004659 active site 343509004660 dimer interface [polypeptide binding]; other site 343509004661 catalytic residues [active] 343509004662 effector binding site; other site 343509004663 R2 peptide binding site; other site 343509004664 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 343509004665 dimer interface [polypeptide binding]; other site 343509004666 putative radical transfer pathway; other site 343509004667 diiron center [ion binding]; other site 343509004668 tyrosyl radical; other site 343509004669 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 343509004670 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 343509004671 catalytic loop [active] 343509004672 iron binding site [ion binding]; other site 343509004673 hypothetical protein; Provisional; Region: PRK03673 343509004674 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 343509004675 putative MPT binding site; other site 343509004676 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 343509004677 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 343509004678 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 343509004679 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 343509004680 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 343509004681 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 343509004682 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 343509004683 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 343509004684 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 343509004685 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 343509004686 4Fe-4S binding domain; Region: Fer4; cl02805 343509004687 4Fe-4S binding domain; Region: Fer4; pfam00037 343509004688 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 343509004689 NADH dehydrogenase subunit G; Validated; Region: PRK08166 343509004690 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 343509004691 catalytic loop [active] 343509004692 iron binding site [ion binding]; other site 343509004693 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 343509004694 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 343509004695 [4Fe-4S] binding site [ion binding]; other site 343509004696 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 343509004697 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 343509004698 SLBB domain; Region: SLBB; pfam10531 343509004699 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 343509004700 NADH dehydrogenase subunit E; Validated; Region: PRK07539 343509004701 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 343509004702 putative dimer interface [polypeptide binding]; other site 343509004703 [2Fe-2S] cluster binding site [ion binding]; other site 343509004704 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 343509004705 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 343509004706 NADH dehydrogenase subunit D; Validated; Region: PRK06075 343509004707 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 343509004708 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 343509004709 aminotransferase AlaT; Validated; Region: PRK09265 343509004710 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 343509004711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509004712 homodimer interface [polypeptide binding]; other site 343509004713 catalytic residue [active] 343509004714 5'-nucleotidase; Provisional; Region: PRK03826 343509004715 putative phosphatase; Provisional; Region: PRK11587 343509004716 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 343509004717 motif II; other site 343509004718 hypothetical protein; Provisional; Region: PRK01816 343509004719 propionate/acetate kinase; Provisional; Region: PRK12379 343509004720 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 343509004721 phosphate acetyltransferase; Reviewed; Region: PRK05632 343509004722 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 343509004723 DRTGG domain; Region: DRTGG; pfam07085 343509004724 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 343509004725 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 343509004726 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_38; cd04697 343509004727 nudix motif; other site 343509004728 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 343509004729 C-terminal domain interface [polypeptide binding]; other site 343509004730 GSH binding site (G-site) [chemical binding]; other site 343509004731 dimer interface [polypeptide binding]; other site 343509004732 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 343509004733 dimer interface [polypeptide binding]; other site 343509004734 substrate binding pocket (H-site) [chemical binding]; other site 343509004735 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 343509004736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 343509004737 NAD(P) binding site [chemical binding]; other site 343509004738 active site 343509004739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509004740 Walker A/P-loop; other site 343509004741 ATP binding site [chemical binding]; other site 343509004742 ABC transporter; Region: ABC_tran; pfam00005 343509004743 Q-loop/lid; other site 343509004744 ABC transporter signature motif; other site 343509004745 Walker B; other site 343509004746 D-loop; other site 343509004747 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 343509004748 Flavoprotein; Region: Flavoprotein; pfam02441 343509004749 amidophosphoribosyltransferase; Provisional; Region: PRK09246 343509004750 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 343509004751 active site 343509004752 tetramer interface [polypeptide binding]; other site 343509004753 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 343509004754 active site 343509004755 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 343509004756 colicin V production protein; Provisional; Region: PRK10845 343509004757 cell division protein DedD; Provisional; Region: PRK11633 343509004758 Sporulation related domain; Region: SPOR; pfam05036 343509004759 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 343509004760 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 343509004761 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 343509004762 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 343509004763 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 343509004764 hypothetical protein; Provisional; Region: PRK10847 343509004765 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 343509004766 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 343509004767 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 343509004768 dimerization interface 3.5A [polypeptide binding]; other site 343509004769 active site 343509004770 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 343509004771 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 343509004772 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 343509004773 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 343509004774 ligand binding site [chemical binding]; other site 343509004775 NAD binding site [chemical binding]; other site 343509004776 catalytic site [active] 343509004777 homodimer interface [polypeptide binding]; other site 343509004778 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 343509004779 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 343509004780 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 343509004781 dimer interface [polypeptide binding]; other site 343509004782 active site 343509004783 YfcL protein; Region: YfcL; pfam08891 343509004784 Protein of unknown function, DUF462; Region: DUF462; pfam04315 343509004785 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 343509004786 hypothetical protein; Provisional; Region: PRK10621 343509004787 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 343509004788 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 343509004789 Tetramer interface [polypeptide binding]; other site 343509004790 active site 343509004791 FMN-binding site [chemical binding]; other site 343509004792 HemK family putative methylases; Region: hemK_fam; TIGR00536 343509004793 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 343509004794 S-adenosylmethionine binding site [chemical binding]; other site 343509004795 hypothetical protein; Provisional; Region: PRK04946 343509004796 Smr domain; Region: Smr; cl02619 343509004797 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 343509004798 catalytic core [active] 343509004799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 343509004800 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 343509004801 Cytochrome C biogenesis protein; Region: CcmH; cl01179 343509004802 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 343509004803 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 343509004804 heme exporter protein CcmC; Region: ccmC; TIGR01191 343509004805 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509004806 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 343509004807 Walker A/P-loop; other site 343509004808 ATP binding site [chemical binding]; other site 343509004809 Q-loop/lid; other site 343509004810 ABC transporter signature motif; other site 343509004811 Walker B; other site 343509004812 D-loop; other site 343509004813 H-loop/switch region; other site 343509004814 integrase; Provisional; Region: PRK09692 343509004815 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 343509004816 active site 343509004817 Int/Topo IB signature motif; other site 343509004818 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 343509004819 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 343509004820 Phage-related protein, tail component [Function unknown]; Region: COG4723 343509004821 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 343509004822 active site 343509004823 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509004824 catalytic residues [active] 343509004825 Phage antitermination protein Q; Region: Phage_antiter_Q; pfam06323 343509004826 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 343509004827 ORF6N domain; Region: ORF6N; pfam10543 343509004828 hypothetical protein; Provisional; Region: PRK09956 343509004829 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509004830 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 343509004831 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 343509004832 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509004833 virion protein; Provisional; Region: V; PHA02564 343509004834 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 343509004835 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 343509004836 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 343509004837 Phage terminase large subunit; Region: Terminase_3; cl12054 343509004838 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 343509004839 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 343509004840 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 343509004841 catalytic residue [active] 343509004842 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 343509004843 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 343509004844 catalytic tetrad [active] 343509004845 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; cl00470 343509004846 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 343509004847 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 343509004848 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 343509004849 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 343509004850 Nucleoside recognition; Region: Gate; pfam07670 343509004851 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 343509004852 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 343509004853 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 343509004854 HIGH motif; other site 343509004855 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 343509004856 active site 343509004857 KMSKS motif; other site 343509004858 Transposase, Mutator family; Region: Transposase_mut; pfam00872 343509004859 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 343509004860 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 343509004861 nucleotide binding pocket [chemical binding]; other site 343509004862 K-X-D-G motif; other site 343509004863 catalytic site [active] 343509004864 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 343509004865 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 343509004866 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 343509004867 Dimer interface [polypeptide binding]; other site 343509004868 cell division protein ZipA; Provisional; Region: PRK03427 343509004869 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 343509004870 FtsZ protein binding site [polypeptide binding]; other site 343509004871 putative sulfate transport protein CysZ; Validated; Region: PRK04949 343509004872 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 343509004873 catalytic residues [active] 343509004874 Lysis protein S; Region: Lysis_S; pfam04971 343509004875 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 343509004876 structural protein; Region: PHA01972 343509004877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509004878 Coenzyme A binding pocket [chemical binding]; other site 343509004879 hypothetical protein; Region: PHA00670 343509004880 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 343509004881 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509004882 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 343509004883 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 343509004884 Ash protein family; Region: Phage_ASH; pfam10554 343509004885 RecT family; Region: RecT; pfam03837 343509004886 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509004887 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 343509004888 DNA binding residues [nucleotide binding] 343509004889 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 343509004890 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 343509004891 dimer interface [polypeptide binding]; other site 343509004892 active site 343509004893 Int/Topo IB signature motif; other site 343509004894 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 343509004895 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 343509004896 dimer interface [polypeptide binding]; other site 343509004897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509004898 catalytic residue [active] 343509004899 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 343509004900 dimerization domain swap beta strand [polypeptide binding]; other site 343509004901 regulatory protein interface [polypeptide binding]; other site 343509004902 active site 343509004903 regulatory phosphorylation site [posttranslational modification]; other site 343509004904 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 343509004905 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 343509004906 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 343509004907 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 343509004908 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 343509004909 HPr interaction site; other site 343509004910 glycerol kinase (GK) interaction site [polypeptide binding]; other site 343509004911 active site 343509004912 phosphorylation site [posttranslational modification] 343509004913 Response regulator receiver domain; Region: Response_reg; pfam00072 343509004914 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 343509004915 active site 343509004916 phosphorylation site [posttranslational modification] 343509004917 intermolecular recognition site; other site 343509004918 dimerization interface [polypeptide binding]; other site 343509004919 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 343509004920 cysteine synthase B; Region: cysM; TIGR01138 343509004921 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 343509004922 dimer interface [polypeptide binding]; other site 343509004923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509004924 catalytic residue [active] 343509004925 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 343509004926 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 343509004927 Walker A/P-loop; other site 343509004928 ATP binding site [chemical binding]; other site 343509004929 Q-loop/lid; other site 343509004930 ABC transporter signature motif; other site 343509004931 Walker B; other site 343509004932 D-loop; other site 343509004933 H-loop/switch region; other site 343509004934 TOBE-like domain; Region: TOBE_3; pfam12857 343509004935 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 343509004936 dimer interface [polypeptide binding]; other site 343509004937 conserved gate region; other site 343509004938 putative PBP binding loops; other site 343509004939 ABC-ATPase subunit interface; other site 343509004940 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 343509004941 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 343509004942 dimer interface [polypeptide binding]; other site 343509004943 conserved gate region; other site 343509004944 putative PBP binding loops; other site 343509004945 ABC-ATPase subunit interface; other site 343509004946 thiosulfate transporter subunit; Provisional; Region: PRK10852 343509004947 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 343509004948 putative acetyltransferase; Provisional; Region: PRK03624 343509004949 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509004950 Coenzyme A binding pocket [chemical binding]; other site 343509004951 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 343509004952 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 343509004953 hypothetical protein; Validated; Region: PRK00124 343509004954 transaldolase-like protein; Provisional; Region: PTZ00411 343509004955 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 343509004956 active site 343509004957 dimer interface [polypeptide binding]; other site 343509004958 catalytic residue [active] 343509004959 transketolase; Reviewed; Region: PRK12753 343509004960 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 343509004961 TPP-binding site [chemical binding]; other site 343509004962 dimer interface [polypeptide binding]; other site 343509004963 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 343509004964 PYR/PP interface [polypeptide binding]; other site 343509004965 dimer interface [polypeptide binding]; other site 343509004966 TPP binding site [chemical binding]; other site 343509004967 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 343509004968 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 343509004969 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 343509004970 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 343509004971 ArsC family; Region: ArsC; pfam03960 343509004972 putative catalytic residues [active] 343509004973 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 343509004974 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 343509004975 metal binding site [ion binding]; metal-binding site 343509004976 dimer interface [polypeptide binding]; other site 343509004977 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 343509004978 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 343509004979 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 343509004980 Helicase; Region: Helicase_RecD; pfam05127 343509004981 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 343509004982 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 343509004983 Predicted membrane protein [Function unknown]; Region: COG2707 343509004984 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 343509004985 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 343509004986 ATP binding site [chemical binding]; other site 343509004987 active site 343509004988 substrate binding site [chemical binding]; other site 343509004989 lipoprotein; Provisional; Region: PRK11679 343509004990 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 343509004991 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 343509004992 dihydrodipicolinate synthase; Region: dapA; TIGR00674 343509004993 dimer interface [polypeptide binding]; other site 343509004994 active site 343509004995 catalytic residue [active] 343509004996 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 343509004997 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 343509004998 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 343509004999 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 343509005000 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 343509005001 catalytic triad [active] 343509005002 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 343509005003 Peptidase family M48; Region: Peptidase_M48; pfam01435 343509005004 DNA replication initiation factor; Provisional; Region: PRK08084 343509005005 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 343509005006 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 343509005007 active site 343509005008 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 343509005009 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 343509005010 dimerization interface [polypeptide binding]; other site 343509005011 putative ATP binding site [chemical binding]; other site 343509005012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509005013 Walker A/P-loop; other site 343509005014 ATP binding site [chemical binding]; other site 343509005015 Q-loop/lid; other site 343509005016 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 343509005017 putative PBP binding loops; other site 343509005018 ABC-ATPase subunit interface; other site 343509005019 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 343509005020 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 343509005021 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 343509005022 polyphosphate kinase; Provisional; Region: PRK05443 343509005023 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 343509005024 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 343509005025 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 343509005026 domain interface [polypeptide binding]; other site 343509005027 active site 343509005028 catalytic site [active] 343509005029 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 343509005030 domain interface [polypeptide binding]; other site 343509005031 active site 343509005032 catalytic site [active] 343509005033 exopolyphosphatase; Provisional; Region: PRK10854 343509005034 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 343509005035 nucleotide binding site [chemical binding]; other site 343509005036 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 343509005037 MgtE intracellular N domain; Region: MgtE_N; smart00924 343509005038 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 343509005039 Divalent cation transporter; Region: MgtE; cl00786 343509005040 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 343509005041 substrate binding site [chemical binding]; other site 343509005042 ATP binding site [chemical binding]; other site 343509005043 Autoinducer binding domain; Region: Autoind_bind; pfam03472 343509005044 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 343509005045 DNA binding residues [nucleotide binding] 343509005046 dimerization interface [polypeptide binding]; other site 343509005047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509005048 Coenzyme A binding pocket [chemical binding]; other site 343509005049 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 343509005050 CPxP motif; other site 343509005051 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 343509005052 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 343509005053 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 343509005054 metal binding site [ion binding]; metal-binding site 343509005055 putative dimer interface [polypeptide binding]; other site 343509005056 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 343509005057 active site 343509005058 P-loop; other site 343509005059 phosphorylation site [posttranslational modification] 343509005060 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 343509005061 active site 343509005062 phosphorylation site [posttranslational modification] 343509005063 HNH endonuclease; Region: HNH_2; pfam13391 343509005064 GMP synthase; Reviewed; Region: guaA; PRK00074 343509005065 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 343509005066 AMP/PPi binding site [chemical binding]; other site 343509005067 candidate oxyanion hole; other site 343509005068 catalytic triad [active] 343509005069 potential glutamine specificity residues [chemical binding]; other site 343509005070 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 343509005071 ATP Binding subdomain [chemical binding]; other site 343509005072 Ligand Binding sites [chemical binding]; other site 343509005073 Dimerization subdomain; other site 343509005074 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 343509005075 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 343509005076 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 343509005077 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 343509005078 active site 343509005079 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 343509005080 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 343509005081 generic binding surface II; other site 343509005082 generic binding surface I; other site 343509005083 malate:quinone oxidoreductase; Validated; Region: PRK05257 343509005084 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 343509005085 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 343509005086 DNA binding site [nucleotide binding] 343509005087 domain linker motif; other site 343509005088 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 343509005089 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 343509005090 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509005091 Coenzyme A binding pocket [chemical binding]; other site 343509005092 GTP-binding protein Der; Reviewed; Region: PRK00093 343509005093 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 343509005094 G1 box; other site 343509005095 GTP/Mg2+ binding site [chemical binding]; other site 343509005096 Switch I region; other site 343509005097 G2 box; other site 343509005098 Switch II region; other site 343509005099 G3 box; other site 343509005100 G4 box; other site 343509005101 G5 box; other site 343509005102 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 343509005103 G1 box; other site 343509005104 GTP/Mg2+ binding site [chemical binding]; other site 343509005105 Switch I region; other site 343509005106 G2 box; other site 343509005107 G3 box; other site 343509005108 Switch II region; other site 343509005109 G4 box; other site 343509005110 G5 box; other site 343509005111 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 343509005112 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 343509005113 Trp docking motif [polypeptide binding]; other site 343509005114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 343509005115 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 343509005116 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 343509005117 dimer interface [polypeptide binding]; other site 343509005118 motif 1; other site 343509005119 active site 343509005120 motif 2; other site 343509005121 motif 3; other site 343509005122 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 343509005123 anticodon binding site; other site 343509005124 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 343509005125 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 343509005126 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 343509005127 cytoskeletal protein RodZ; Provisional; Region: PRK10856 343509005128 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 343509005129 non-specific DNA binding site [nucleotide binding]; other site 343509005130 salt bridge; other site 343509005131 sequence-specific DNA binding site [nucleotide binding]; other site 343509005132 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 343509005133 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 343509005134 binding surface 343509005135 Tetratricopeptide repeat; Region: TPR_16; pfam13432 343509005136 TPR motif; other site 343509005137 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 343509005138 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 343509005139 FeS/SAM binding site; other site 343509005140 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 343509005141 active site 343509005142 multimer interface [polypeptide binding]; other site 343509005143 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 343509005144 active site residue [active] 343509005145 SseB protein; Region: SseB; pfam07179 343509005146 aminopeptidase B; Provisional; Region: PRK05015 343509005147 Peptidase; Region: DUF3663; pfam12404 343509005148 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 343509005149 interface (dimer of trimers) [polypeptide binding]; other site 343509005150 Substrate-binding/catalytic site; other site 343509005151 Zn-binding sites [ion binding]; other site 343509005152 cysteine desulfurase; Provisional; Region: PRK14012 343509005153 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 343509005154 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509005155 catalytic residue [active] 343509005156 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 343509005157 Rrf2 family protein; Region: rrf2_super; TIGR00738 343509005158 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 343509005159 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 343509005160 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 343509005161 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 343509005162 active site 343509005163 dimerization interface [polypeptide binding]; other site 343509005164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 343509005165 NAD(P) binding site [chemical binding]; other site 343509005166 active site 343509005167 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 343509005168 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 343509005169 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 343509005170 dimer interface [polypeptide binding]; other site 343509005171 active site 343509005172 glycine-pyridoxal phosphate binding site [chemical binding]; other site 343509005173 folate binding site [chemical binding]; other site 343509005174 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 343509005175 Nitrogen regulatory protein P-II; Region: P-II; smart00938 343509005176 Response regulator receiver domain; Region: Response_reg; pfam00072 343509005177 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 343509005178 active site 343509005179 phosphorylation site [posttranslational modification] 343509005180 intermolecular recognition site; other site 343509005181 dimerization interface [polypeptide binding]; other site 343509005182 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 343509005183 Walker A motif; other site 343509005184 ATP binding site [chemical binding]; other site 343509005185 Walker B motif; other site 343509005186 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 343509005187 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 343509005188 dimerization interface [polypeptide binding]; other site 343509005189 ATP binding site [chemical binding]; other site 343509005190 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 343509005191 dimerization interface [polypeptide binding]; other site 343509005192 ATP binding site [chemical binding]; other site 343509005193 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 343509005194 putative active site [active] 343509005195 catalytic triad [active] 343509005196 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 343509005197 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 343509005198 substrate binding pocket [chemical binding]; other site 343509005199 membrane-bound complex binding site; other site 343509005200 hinge residues; other site 343509005201 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 343509005202 N-acetyl-D-glucosamine binding site [chemical binding]; other site 343509005203 catalytic residue [active] 343509005204 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 343509005205 nucleoside/Zn binding site; other site 343509005206 dimer interface [polypeptide binding]; other site 343509005207 catalytic motif [active] 343509005208 hypothetical protein; Provisional; Region: PRK11590 343509005209 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 343509005210 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 343509005211 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 343509005212 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 343509005213 active site 343509005214 hydrophilic channel; other site 343509005215 dimerization interface [polypeptide binding]; other site 343509005216 catalytic residues [active] 343509005217 active site lid [active] 343509005218 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 343509005219 Recombination protein O N terminal; Region: RecO_N; pfam11967 343509005220 Recombination protein O C terminal; Region: RecO_C; pfam02565 343509005221 GTPase Era; Reviewed; Region: era; PRK00089 343509005222 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 343509005223 G1 box; other site 343509005224 GTP/Mg2+ binding site [chemical binding]; other site 343509005225 Switch I region; other site 343509005226 G2 box; other site 343509005227 Switch II region; other site 343509005228 G3 box; other site 343509005229 G4 box; other site 343509005230 G5 box; other site 343509005231 KH domain; Region: KH_2; pfam07650 343509005232 dsRNA-specific ribonuclease [Transcription]; Region: Rnc; COG0571 343509005233 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 343509005234 dimerization interface [polypeptide binding]; other site 343509005235 active site 343509005236 metal binding site [ion binding]; metal-binding site 343509005237 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 343509005238 dsRNA binding site [nucleotide binding]; other site 343509005239 signal peptidase I; Provisional; Region: PRK10861 343509005240 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 343509005241 Catalytic site [active] 343509005242 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 343509005243 GTP-binding protein LepA; Provisional; Region: PRK05433 343509005244 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 343509005245 G1 box; other site 343509005246 putative GEF interaction site [polypeptide binding]; other site 343509005247 GTP/Mg2+ binding site [chemical binding]; other site 343509005248 Switch I region; other site 343509005249 G2 box; other site 343509005250 G3 box; other site 343509005251 Switch II region; other site 343509005252 G4 box; other site 343509005253 G5 box; other site 343509005254 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 343509005255 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 343509005256 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 343509005257 SoxR reducing system protein RseC; Provisional; Region: PRK10862 343509005258 anti-sigma E factor; Provisional; Region: rseB; PRK09455 343509005259 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 343509005260 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 343509005261 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 343509005262 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 343509005263 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 343509005264 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 343509005265 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 343509005266 DNA binding residues [nucleotide binding] 343509005267 L-aspartate oxidase; Provisional; Region: PRK09077 343509005268 L-aspartate oxidase; Provisional; Region: PRK06175 343509005269 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 343509005270 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 343509005271 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 343509005272 ATP binding site [chemical binding]; other site 343509005273 Mg++ binding site [ion binding]; other site 343509005274 motif III; other site 343509005275 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 343509005276 nucleotide binding region [chemical binding]; other site 343509005277 ATP-binding site [chemical binding]; other site 343509005278 autonomous glycyl radical cofactor GrcA; Region: spare_glycyl; TIGR04365 343509005279 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 343509005280 ligand binding site [chemical binding]; other site 343509005281 active site 343509005282 UGI interface [polypeptide binding]; other site 343509005283 catalytic site [active] 343509005284 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 343509005285 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 343509005286 dimer interface [polypeptide binding]; other site 343509005287 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 343509005288 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 343509005289 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 343509005290 recombination and repair protein; Provisional; Region: PRK10869 343509005291 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 343509005292 Walker A/P-loop; other site 343509005293 ATP binding site [chemical binding]; other site 343509005294 Q-loop/lid; other site 343509005295 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 343509005296 ABC transporter signature motif; other site 343509005297 Walker B; other site 343509005298 D-loop; other site 343509005299 H-loop/switch region; other site 343509005300 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 343509005301 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 343509005302 hypothetical protein; Validated; Region: PRK01777 343509005303 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 343509005304 putative coenzyme Q binding site [chemical binding]; other site 343509005305 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 343509005306 SmpB-tmRNA interface; other site 343509005307 hypothetical protein; Provisional; Region: PRK09956 343509005308 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509005309 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 343509005310 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 343509005311 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 343509005312 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509005313 virion protein; Provisional; Region: V; PHA02564 343509005314 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 343509005315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 343509005316 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 343509005317 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 343509005318 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 343509005319 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 343509005320 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 343509005321 Phage terminase large subunit; Region: Terminase_3; cl12054 343509005322 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 343509005323 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 343509005324 ORF6N domain; Region: ORF6N; pfam10543 343509005325 Helix-turn-helix domain; Region: HTH_36; pfam13730 343509005326 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 343509005327 non-specific DNA binding site [nucleotide binding]; other site 343509005328 Predicted transcriptional regulator [Transcription]; Region: COG2932 343509005329 salt bridge; other site 343509005330 sequence-specific DNA binding site [nucleotide binding]; other site 343509005331 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 343509005332 Catalytic site [active] 343509005333 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 343509005334 AAA domain; Region: AAA_24; pfam13479 343509005335 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 343509005336 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509005337 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509005338 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509005339 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509005340 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 343509005341 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 343509005342 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509005343 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 343509005344 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 343509005345 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 343509005346 mannonate dehydratase; Region: uxuA; TIGR00695 343509005347 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 343509005348 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 343509005349 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 343509005350 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 343509005351 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 343509005352 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 343509005353 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 343509005354 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 343509005355 active site 343509005356 substrate binding site [chemical binding]; other site 343509005357 cosubstrate binding site; other site 343509005358 catalytic site [active] 343509005359 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 343509005360 active site 343509005361 hexamer interface [polypeptide binding]; other site 343509005362 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 343509005363 NAD binding site [chemical binding]; other site 343509005364 substrate binding site [chemical binding]; other site 343509005365 active site 343509005366 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 343509005367 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 343509005368 Ligand binding site; other site 343509005369 Putative Catalytic site; other site 343509005370 DXD motif; other site 343509005371 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 343509005372 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 343509005373 inhibitor-cofactor binding pocket; inhibition site 343509005374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509005375 catalytic residue [active] 343509005376 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 343509005377 Catalytic site [active] 343509005378 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 343509005379 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 343509005380 putative substrate binding pocket [chemical binding]; other site 343509005381 AC domain interface; other site 343509005382 catalytic triad [active] 343509005383 AB domain interface; other site 343509005384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509005385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509005386 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 343509005387 substrate binding pocket [chemical binding]; other site 343509005388 dimerization interface [polypeptide binding]; other site 343509005389 hypothetical protein; Provisional; Region: PRK11020 343509005390 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 343509005391 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 343509005392 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 343509005393 DNA binding residues [nucleotide binding] 343509005394 dimer interface [polypeptide binding]; other site 343509005395 putative metal binding site [ion binding]; other site 343509005396 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 343509005397 Heavy-metal-associated domain; Region: HMA; pfam00403 343509005398 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 343509005399 Soluble P-type ATPase [General function prediction only]; Region: COG4087 343509005400 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 343509005401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509005402 DNA-binding site [nucleotide binding]; DNA binding site 343509005403 UTRA domain; Region: UTRA; cl17743 343509005404 Salmonella outer protein D; Region: SopD; cl14701 343509005405 propanediol utilization protein PduB; Provisional; Region: PRK15415 343509005406 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 343509005407 putative hexamer interface [polypeptide binding]; other site 343509005408 putative hexagonal pore; other site 343509005409 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 343509005410 amphipathic channel; other site 343509005411 Asn-Pro-Ala signature motifs; other site 343509005412 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 343509005413 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 343509005414 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 343509005415 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 343509005416 Baseplate J-like protein; Region: Baseplate_J; cl01294 343509005417 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 343509005418 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 343509005419 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 343509005420 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 343509005421 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 343509005422 homodimer interface [polypeptide binding]; other site 343509005423 NAD binding pocket [chemical binding]; other site 343509005424 ATP binding pocket [chemical binding]; other site 343509005425 Mg binding site [ion binding]; other site 343509005426 active-site loop [active] 343509005427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509005428 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; cl11398 343509005429 dimerization interface [polypeptide binding]; other site 343509005430 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 343509005431 dimer interface [polypeptide binding]; other site 343509005432 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 343509005433 Acyltransferase family; Region: Acyl_transf_3; pfam01757 343509005434 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 343509005435 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 343509005436 putative active site pocket [active] 343509005437 dimerization interface [polypeptide binding]; other site 343509005438 putative catalytic residue [active] 343509005439 cation transport regulator; Reviewed; Region: chaB; PRK09582 343509005440 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 343509005441 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 343509005442 hypothetical protein; Provisional; Region: PRK10941 343509005443 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 343509005444 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 343509005445 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 343509005446 S-adenosylmethionine binding site [chemical binding]; other site 343509005447 peptide chain release factor 1; Validated; Region: prfA; PRK00591 343509005448 This domain is found in peptide chain release factors; Region: PCRF; smart00937 343509005449 RF-1 domain; Region: RF-1; pfam00472 343509005450 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 343509005451 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 343509005452 tRNA; other site 343509005453 putative tRNA binding site [nucleotide binding]; other site 343509005454 putative NADP binding site [chemical binding]; other site 343509005455 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 343509005456 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 343509005457 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 343509005458 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 343509005459 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 343509005460 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 343509005461 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 343509005462 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 343509005463 active site 343509005464 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 343509005465 putative active site [active] 343509005466 catalytic residue [active] 343509005467 GTP-binding protein YchF; Reviewed; Region: PRK09601 343509005468 YchF GTPase; Region: YchF; cd01900 343509005469 G1 box; other site 343509005470 GTP/Mg2+ binding site [chemical binding]; other site 343509005471 Switch I region; other site 343509005472 G2 box; other site 343509005473 Switch II region; other site 343509005474 G3 box; other site 343509005475 G4 box; other site 343509005476 G5 box; other site 343509005477 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 343509005478 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 343509005479 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 343509005480 nucleotide binding site [chemical binding]; other site 343509005481 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 343509005482 Hexamer/Pentamer interface [polypeptide binding]; other site 343509005483 central pore; other site 343509005484 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509005485 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509005486 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509005487 Trehalase; Region: Trehalase; cl17346 343509005488 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 343509005489 hypothetical protein; Provisional; Region: PRK09273 343509005490 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 343509005491 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 343509005492 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 343509005493 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 343509005494 active site 343509005495 metal binding site [ion binding]; metal-binding site 343509005496 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 343509005497 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 343509005498 non-specific DNA binding site [nucleotide binding]; other site 343509005499 salt bridge; other site 343509005500 sequence-specific DNA binding site [nucleotide binding]; other site 343509005501 integrase; Provisional; Region: int; PHA02601 343509005502 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 343509005503 active site 343509005504 DNA binding site [nucleotide binding] 343509005505 Int/Topo IB signature motif; other site 343509005506 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 343509005507 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA; cl01007 343509005508 SxDxEG motif; other site 343509005509 active site 343509005510 metal binding site [ion binding]; metal-binding site 343509005511 homopentamer interface [polypeptide binding]; other site 343509005512 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 343509005513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509005514 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 343509005515 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 343509005516 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 343509005517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509005518 Coenzyme A binding pocket [chemical binding]; other site 343509005519 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 343509005520 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509005521 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 343509005522 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509005523 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509005524 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 343509005525 catalytic residues [active] 343509005526 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 343509005527 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 343509005528 dimer interface [polypeptide binding]; other site 343509005529 conserved gate region; other site 343509005530 putative PBP binding loops; other site 343509005531 ABC-ATPase subunit interface; other site 343509005532 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 343509005533 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 343509005534 transcriptional repressor MprA; Provisional; Region: PRK10870 343509005535 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 343509005536 putative methyltransferase; Provisional; Region: PRK10864 343509005537 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 343509005538 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 343509005539 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 343509005540 catalytic residues [active] 343509005541 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 343509005542 CoA binding domain; Region: CoA_binding_2; pfam13380 343509005543 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 343509005544 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 343509005545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 343509005546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509005547 Coenzyme A binding pocket [chemical binding]; other site 343509005548 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 343509005549 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 343509005550 putative active site [active] 343509005551 catalytic site [active] 343509005552 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 343509005553 domain interface [polypeptide binding]; other site 343509005554 putative active site [active] 343509005555 catalytic site [active] 343509005556 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 343509005557 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 343509005558 putative active site cavity [active] 343509005559 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 343509005560 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 343509005561 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 343509005562 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 343509005563 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 343509005564 active site turn [active] 343509005565 phosphorylation site [posttranslational modification] 343509005566 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 343509005567 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 343509005568 active site 343509005569 motif I; other site 343509005570 motif II; other site 343509005571 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 343509005572 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 343509005573 Walker A/P-loop; other site 343509005574 ATP binding site [chemical binding]; other site 343509005575 Q-loop/lid; other site 343509005576 ABC transporter signature motif; other site 343509005577 Walker B; other site 343509005578 D-loop; other site 343509005579 H-loop/switch region; other site 343509005580 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 343509005581 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 343509005582 dimer interface [polypeptide binding]; other site 343509005583 conserved gate region; other site 343509005584 ABC-ATPase subunit interface; other site 343509005585 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 343509005586 lipoprotein, YaeC family; Region: TIGR00363 343509005587 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 343509005588 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 343509005589 homodimer interaction site [polypeptide binding]; other site 343509005590 cofactor binding site; other site 343509005591 prolyl-tRNA synthetase; Provisional; Region: PRK09194 343509005592 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 343509005593 dimer interface [polypeptide binding]; other site 343509005594 motif 1; other site 343509005595 active site 343509005596 motif 2; other site 343509005597 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 343509005598 putative deacylase active site [active] 343509005599 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 343509005600 active site 343509005601 motif 3; other site 343509005602 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 343509005603 anticodon binding site; other site 343509005604 YaeQ protein; Region: YaeQ; pfam07152 343509005605 Rho-binding antiterminator; Provisional; Region: PRK11625 343509005606 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 343509005607 Ligand Binding Site [chemical binding]; other site 343509005608 TilS substrate binding domain; Region: TilS; pfam09179 343509005609 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 343509005610 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 343509005611 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 343509005612 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 343509005613 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 343509005614 putative active site [active] 343509005615 putative PHP Thumb interface [polypeptide binding]; other site 343509005616 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 343509005617 generic binding surface II; other site 343509005618 generic binding surface I; other site 343509005619 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 343509005620 RNA/DNA hybrid binding site [nucleotide binding]; other site 343509005621 active site 343509005622 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 343509005623 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 343509005624 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 343509005625 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 343509005626 active site 343509005627 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 343509005628 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 343509005629 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 343509005630 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 343509005631 trimer interface [polypeptide binding]; other site 343509005632 active site 343509005633 UDP-GlcNAc binding site [chemical binding]; other site 343509005634 lipid binding site [chemical binding]; lipid-binding site 343509005635 periplasmic chaperone; Provisional; Region: PRK10780 343509005636 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 343509005637 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 343509005638 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 343509005639 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 343509005640 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 343509005641 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 343509005642 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 343509005643 Surface antigen; Region: Bac_surface_Ag; pfam01103 343509005644 zinc metallopeptidase RseP; Provisional; Region: PRK10779 343509005645 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 343509005646 active site 343509005647 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 343509005648 protein binding site [polypeptide binding]; other site 343509005649 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 343509005650 protein binding site [polypeptide binding]; other site 343509005651 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 343509005652 putative substrate binding region [chemical binding]; other site 343509005653 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 343509005654 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 343509005655 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 343509005656 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 343509005657 catalytic residue [active] 343509005658 putative FPP diphosphate binding site; other site 343509005659 putative FPP binding hydrophobic cleft; other site 343509005660 dimer interface [polypeptide binding]; other site 343509005661 putative IPP diphosphate binding site; other site 343509005662 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 343509005663 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 343509005664 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 343509005665 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 343509005666 ribosome recycling factor; Reviewed; Region: frr; PRK00083 343509005667 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 343509005668 hinge region; other site 343509005669 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 343509005670 putative nucleotide binding site [chemical binding]; other site 343509005671 uridine monophosphate binding site [chemical binding]; other site 343509005672 homohexameric interface [polypeptide binding]; other site 343509005673 elongation factor Ts; Provisional; Region: tsf; PRK09377 343509005674 UBA/TS-N domain; Region: UBA; pfam00627 343509005675 Elongation factor TS; Region: EF_TS; pfam00889 343509005676 Elongation factor TS; Region: EF_TS; pfam00889 343509005677 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 343509005678 rRNA interaction site [nucleotide binding]; other site 343509005679 S8 interaction site; other site 343509005680 putative laminin-1 binding site; other site 343509005681 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 343509005682 active site 343509005683 PII uridylyl-transferase; Provisional; Region: PRK05007 343509005684 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 343509005685 metal binding triad; other site 343509005686 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 343509005687 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 343509005688 Zn2+ binding site [ion binding]; other site 343509005689 Mg2+ binding site [ion binding]; other site 343509005690 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 343509005691 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 343509005692 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 343509005693 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 343509005694 trimer interface [polypeptide binding]; other site 343509005695 active site 343509005696 substrate binding site [chemical binding]; other site 343509005697 CoA binding site [chemical binding]; other site 343509005698 hypothetical protein; Provisional; Region: PRK13677 343509005699 flavodoxin; Provisional; Region: PRK08105 343509005700 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 343509005701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 343509005702 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 343509005703 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 343509005704 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 343509005705 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 343509005706 flap endonuclease-like protein; Provisional; Region: PRK09482 343509005707 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 343509005708 active site 343509005709 metal binding site 1 [ion binding]; metal-binding site 343509005710 putative 5' ssDNA interaction site; other site 343509005711 metal binding site 3; metal-binding site 343509005712 metal binding site 2 [ion binding]; metal-binding site 343509005713 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 343509005714 putative DNA binding site [nucleotide binding]; other site 343509005715 putative metal binding site [ion binding]; other site 343509005716 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 343509005717 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 343509005718 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 343509005719 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 343509005720 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 343509005721 hypothetical protein; Provisional; Region: PRK10873 343509005722 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 343509005723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509005724 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 343509005725 dimerization interface [polypeptide binding]; other site 343509005726 substrate binding pocket [chemical binding]; other site 343509005727 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 343509005728 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 343509005729 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 343509005730 catalytic residue [active] 343509005731 cysteine desulfurase, sulfur acceptor subunit CsdE; Region: FeS_syn_CsdE; TIGR03391 343509005732 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 343509005733 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 343509005734 putative ATP binding site [chemical binding]; other site 343509005735 putative substrate interface [chemical binding]; other site 343509005736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 343509005737 Transcriptional regulators [Transcription]; Region: GntR; COG1802 343509005738 DNA-binding site [nucleotide binding]; DNA binding site 343509005739 FCD domain; Region: FCD; pfam07729 343509005740 AMIN domain; Region: AMIN; pfam11741 343509005741 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 343509005742 active site 343509005743 metal binding site [ion binding]; metal-binding site 343509005744 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 343509005745 NinB protein; Region: NinB; pfam05772 343509005746 Helix-turn-helix domain; Region: HTH_36; pfam13730 343509005747 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 343509005748 non-specific DNA binding site [nucleotide binding]; other site 343509005749 salt bridge; other site 343509005750 sequence-specific DNA binding site [nucleotide binding]; other site 343509005751 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 343509005752 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 343509005753 KilA-N domain; Region: KilA-N; pfam04383 343509005754 Replication-relaxation; Region: Replic_Relax; pfam13814 343509005755 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 343509005756 AAA domain; Region: AAA_30; pfam13604 343509005757 Family description; Region: UvrD_C_2; pfam13538 343509005758 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 343509005759 protease3; Provisional; Region: PRK15101 343509005760 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 343509005761 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 343509005762 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 343509005763 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 343509005764 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 343509005765 thymidylate synthase; Reviewed; Region: thyA; PRK01827 343509005766 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 343509005767 dimerization interface [polypeptide binding]; other site 343509005768 active site 343509005769 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 343509005770 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 343509005771 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 343509005772 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 343509005773 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 343509005774 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 343509005775 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 343509005776 putative active site [active] 343509005777 Ap4A binding site [chemical binding]; other site 343509005778 nudix motif; other site 343509005779 putative metal binding site [ion binding]; other site 343509005780 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 343509005781 putative DNA-binding cleft [nucleotide binding]; other site 343509005782 putative DNA clevage site; other site 343509005783 molecular lever; other site 343509005784 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 343509005785 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 343509005786 active site 343509005787 catalytic tetrad [active] 343509005788 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 343509005789 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 343509005790 DNA binding site [nucleotide binding] 343509005791 domain linker motif; other site 343509005792 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 343509005793 dimerization interface (closed form) [polypeptide binding]; other site 343509005794 ligand binding site [chemical binding]; other site 343509005795 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 343509005796 active site 343509005797 methionine cluster; other site 343509005798 phosphorylation site [posttranslational modification] 343509005799 metal binding site [ion binding]; metal-binding site 343509005800 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 343509005801 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509005802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509005803 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 343509005804 dimerization interface [polypeptide binding]; other site 343509005805 substrate binding pocket [chemical binding]; other site 343509005806 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 343509005807 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 343509005808 active site 343509005809 motif I; other site 343509005810 motif II; other site 343509005811 diaminopimelate decarboxylase; Provisional; Region: PRK11165 343509005812 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 343509005813 active site 343509005814 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 343509005815 substrate binding site [chemical binding]; other site 343509005816 catalytic residues [active] 343509005817 dimer interface [polypeptide binding]; other site 343509005818 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 343509005819 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 343509005820 dimer interface [polypeptide binding]; other site 343509005821 putative anticodon binding site; other site 343509005822 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 343509005823 motif 1; other site 343509005824 active site 343509005825 motif 2; other site 343509005826 motif 3; other site 343509005827 peptide chain release factor 2; Provisional; Region: PRK08787 343509005828 This domain is found in peptide chain release factors; Region: PCRF; smart00937 343509005829 RF-1 domain; Region: RF-1; pfam00472 343509005830 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 343509005831 DHH family; Region: DHH; pfam01368 343509005832 DHHA1 domain; Region: DHHA1; pfam02272 343509005833 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 343509005834 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 343509005835 dimerization domain [polypeptide binding]; other site 343509005836 dimer interface [polypeptide binding]; other site 343509005837 catalytic residues [active] 343509005838 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 343509005839 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 343509005840 active site 343509005841 Int/Topo IB signature motif; other site 343509005842 flavodoxin FldB; Provisional; Region: PRK12359 343509005843 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 343509005844 hypothetical protein; Provisional; Region: PRK10878 343509005845 putative global regulator; Reviewed; Region: PRK09559 343509005846 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 343509005847 hemolysin; Provisional; Region: PRK15087 343509005848 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 343509005849 HD domain; Region: HD_3; pfam13023 343509005850 glycine dehydrogenase; Provisional; Region: PRK05367 343509005851 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 343509005852 tetramer interface [polypeptide binding]; other site 343509005853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509005854 catalytic residue [active] 343509005855 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 343509005856 tetramer interface [polypeptide binding]; other site 343509005857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509005858 catalytic residue [active] 343509005859 glycine cleavage system protein H; Provisional; Region: PRK13380 343509005860 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 343509005861 lipoyl attachment site [posttranslational modification]; other site 343509005862 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 343509005863 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 343509005864 oxidoreductase; Provisional; Region: PRK08013 343509005865 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 343509005866 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 343509005867 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 343509005868 proline aminopeptidase P II; Provisional; Region: PRK10879 343509005869 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 343509005870 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 343509005871 active site 343509005872 hypothetical protein; Reviewed; Region: PRK01736 343509005873 Z-ring-associated protein; Provisional; Region: PRK10972 343509005874 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 343509005875 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 343509005876 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 343509005877 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 343509005878 ligand binding site [chemical binding]; other site 343509005879 NAD binding site [chemical binding]; other site 343509005880 tetramer interface [polypeptide binding]; other site 343509005881 catalytic site [active] 343509005882 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 343509005883 L-serine binding site [chemical binding]; other site 343509005884 ACT domain interface; other site 343509005885 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 343509005886 tetramer (dimer of dimers) interface [polypeptide binding]; other site 343509005887 active site 343509005888 dimer interface [polypeptide binding]; other site 343509005889 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 343509005890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509005891 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 343509005892 putative dimerization interface [polypeptide binding]; other site 343509005893 Uncharacterized conserved protein [Function unknown]; Region: COG2968 343509005894 oxidative stress defense protein; Provisional; Region: PRK11087 343509005895 mechanosensitive channel MscS; Provisional; Region: PRK10334 343509005896 Mechanosensitive ion channel; Region: MS_channel; pfam00924 343509005897 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 343509005898 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 343509005899 active site 343509005900 intersubunit interface [polypeptide binding]; other site 343509005901 zinc binding site [ion binding]; other site 343509005902 Na+ binding site [ion binding]; other site 343509005903 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 343509005904 Phosphoglycerate kinase; Region: PGK; pfam00162 343509005905 substrate binding site [chemical binding]; other site 343509005906 hinge regions; other site 343509005907 ADP binding site [chemical binding]; other site 343509005908 catalytic site [active] 343509005909 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 343509005910 agmatinase; Region: agmatinase; TIGR01230 343509005911 oligomer interface [polypeptide binding]; other site 343509005912 putative active site [active] 343509005913 Mn binding site [ion binding]; other site 343509005914 arginine decarboxylase; Provisional; Region: PRK05354 343509005915 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 343509005916 dimer interface [polypeptide binding]; other site 343509005917 active site 343509005918 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 343509005919 catalytic residues [active] 343509005920 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 343509005921 S-adenosylmethionine synthetase; Validated; Region: PRK05250 343509005922 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 343509005923 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 343509005924 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 343509005925 hypothetical protein; Provisional; Region: PRK04860 343509005926 SprT homologues; Region: SprT; cl01182 343509005927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 343509005928 RNA methyltransferase, RsmE family; Region: TIGR00046 343509005929 glutathione synthetase; Provisional; Region: PRK05246 343509005930 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 343509005931 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 343509005932 hypothetical protein; Validated; Region: PRK00228 343509005933 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 343509005934 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 343509005935 intersubunit interface [polypeptide binding]; other site 343509005936 active site 343509005937 Zn2+ binding site [ion binding]; other site 343509005938 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 343509005939 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 343509005940 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 343509005941 catalytic residue [active] 343509005942 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 343509005943 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 343509005944 YGGT family; Region: YGGT; pfam02325 343509005945 Predicted integral membrane protein [Function unknown]; Region: COG0762 343509005946 hypothetical protein; Validated; Region: PRK05090 343509005947 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 343509005948 active site 343509005949 dimerization interface [polypeptide binding]; other site 343509005950 HemN family oxidoreductase; Provisional; Region: PRK05660 343509005951 HemN C-terminal domain; Region: HemN_C; pfam06969 343509005952 hypothetical protein; Provisional; Region: PRK10626 343509005953 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 343509005954 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 343509005955 adenine DNA glycosylase; Provisional; Region: PRK10880 343509005956 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 343509005957 minor groove reading motif; other site 343509005958 helix-hairpin-helix signature motif; other site 343509005959 substrate binding pocket [chemical binding]; other site 343509005960 active site 343509005961 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 343509005962 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 343509005963 DNA binding and oxoG recognition site [nucleotide binding] 343509005964 oxidative damage protection protein; Provisional; Region: PRK05408 343509005965 murein transglycosylase C; Provisional; Region: mltC; PRK11671 343509005966 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 343509005967 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 343509005968 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 343509005969 N-acetyl-D-glucosamine binding site [chemical binding]; other site 343509005970 catalytic residue [active] 343509005971 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 343509005972 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 343509005973 DNA-binding site [nucleotide binding]; DNA binding site 343509005974 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 343509005975 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 343509005976 active site 343509005977 phosphorylation site [posttranslational modification] 343509005978 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 343509005979 active site 343509005980 P-loop; other site 343509005981 phosphorylation site [posttranslational modification] 343509005982 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 343509005983 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 343509005984 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 343509005985 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 343509005986 non-specific DNA binding site [nucleotide binding]; other site 343509005987 salt bridge; other site 343509005988 sequence-specific DNA binding site [nucleotide binding]; other site 343509005989 PAS fold; Region: PAS_4; pfam08448 343509005990 Transcriptional regulator [Transcription]; Region: IclR; COG1414 343509005991 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 343509005992 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 343509005993 MarR family; Region: MarR; pfam01047 343509005994 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 343509005995 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 343509005996 Invasion plasmid antigen IpaD; Region: IpaD; cl05827 343509005997 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 343509005998 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 343509005999 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 343509006000 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 343509006001 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 343509006002 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 343509006003 flagellar motor switch protein; Validated; Region: fliN; PRK05698 343509006004 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 343509006005 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 343509006006 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 343509006007 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 343509006008 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 343509006009 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 343509006010 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 343509006011 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 343509006012 FlgN protein; Region: FlgN; pfam05130 343509006013 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 343509006014 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 343509006015 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 343509006016 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 343509006017 active site 343509006018 phosphorylation site [posttranslational modification] 343509006019 intermolecular recognition site; other site 343509006020 dimerization interface [polypeptide binding]; other site 343509006021 CheB methylesterase; Region: CheB_methylest; pfam01339 343509006022 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 343509006023 putative CheA interaction surface; other site 343509006024 transcriptional activator FlhC; Provisional; Region: PRK12722 343509006025 transcriptional activator FlhD; Provisional; Region: PRK02909 343509006026 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 343509006027 ArsC family; Region: ArsC; pfam03960 343509006028 catalytic residues [active] 343509006029 Transposase, Mutator family; Region: Transposase_mut; pfam00872 343509006030 MULE transposase domain; Region: MULE; pfam10551 343509006031 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 343509006032 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 343509006033 active site 343509006034 invasion protein OrgB; Provisional; Region: PRK15322 343509006035 Bacterial type III secretion apparatus protein (OrgA_MxiK); Region: OrgA_MxiK; pfam09482 343509006036 invasion protein OrgA; Provisional; Region: PRK15323 343509006037 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 343509006038 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327 343509006039 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 343509006040 chaperone protein SicA; Provisional; Region: PRK15331 343509006041 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 343509006042 TPR motif; other site 343509006043 binding surface 343509006044 type III secretion system protein SpaS; Validated; Region: PRK08156 343509006045 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 343509006046 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 343509006047 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 343509006048 type III secretion system protein SpaO; Validated; Region: PRK08158 343509006049 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 343509006050 ATP synthase SpaL; Validated; Region: PRK08149 343509006051 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 343509006052 Walker A motif; other site 343509006053 ATP binding site [chemical binding]; other site 343509006054 Walker B motif; other site 343509006055 type III secretion system chaperone SpaK; Provisional; Region: PRK15336 343509006056 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 343509006057 type III secretion system protein InvA; Provisional; Region: PRK15337 343509006058 type III secretion system outer membrane pore InvG; Provisional; Region: PRK15339 343509006059 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 343509006060 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 343509006061 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 343509006062 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 343509006063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 343509006064 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 343509006065 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 343509006066 HlyD family secretion protein; Region: HlyD_3; pfam13437 343509006067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 343509006068 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509006069 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 343509006070 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 343509006071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509006072 Coenzyme A binding pocket [chemical binding]; other site 343509006073 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 343509006074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 343509006075 NAD(P) binding site [chemical binding]; other site 343509006076 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; cl11398 343509006077 dimerization interface [polypeptide binding]; other site 343509006078 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509006079 Fusaric acid resistance protein family; Region: FUSC; pfam04632 343509006080 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 343509006081 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 343509006082 tetramer interface [polypeptide binding]; other site 343509006083 heme binding pocket [chemical binding]; other site 343509006084 NADPH binding site [chemical binding]; other site 343509006085 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 343509006086 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 343509006087 substrate binding pocket [chemical binding]; other site 343509006088 membrane-bound complex binding site; other site 343509006089 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509006090 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509006091 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 343509006092 hypothetical protein; Provisional; Region: PRK11667 343509006093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509006094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509006095 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; cl11398 343509006096 dimerization interface [polypeptide binding]; other site 343509006097 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 343509006098 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 343509006099 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 343509006100 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 343509006101 multifunctional aminopeptidase A; Provisional; Region: PRK00913 343509006102 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 343509006103 interface (dimer of trimers) [polypeptide binding]; other site 343509006104 Substrate-binding/catalytic site; other site 343509006105 Zn-binding sites [ion binding]; other site 343509006106 DNA polymerase III subunit chi; Validated; Region: PRK05728 343509006107 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 343509006108 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 343509006109 HIGH motif; other site 343509006110 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 343509006111 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 343509006112 active site 343509006113 KMSKS motif; other site 343509006114 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 343509006115 tRNA binding surface [nucleotide binding]; other site 343509006116 anticodon binding site; other site 343509006117 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 343509006118 RNase E inhibitor protein; Provisional; Region: PRK11191 343509006119 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 343509006120 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 343509006121 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 343509006122 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 343509006123 Domain of unknown function (DUF386); Region: DUF386; cl01047 343509006124 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 343509006125 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 343509006126 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 343509006127 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 343509006128 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 343509006129 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 343509006130 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 343509006131 homotrimer interaction site [polypeptide binding]; other site 343509006132 putative active site [active] 343509006133 Cupin domain; Region: Cupin_2; pfam07883 343509006134 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 343509006135 Methyltransferase domain; Region: Methyltransf_26; pfam13659 343509006136 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 343509006137 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 343509006138 acetyl-CoA synthetase; Provisional; Region: PRK00174 343509006139 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 343509006140 active site 343509006141 CoA binding site [chemical binding]; other site 343509006142 acyl-activating enzyme (AAE) consensus motif; other site 343509006143 AMP binding site [chemical binding]; other site 343509006144 acetate binding site [chemical binding]; other site 343509006145 Protein of unknown function, DUF485; Region: DUF485; pfam04341 343509006146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509006147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509006148 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 343509006149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 343509006150 NAD(P) binding site [chemical binding]; other site 343509006151 active site 343509006152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 343509006153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509006154 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 343509006155 putative effector binding pocket; other site 343509006156 putative dimerization interface [polypeptide binding]; other site 343509006157 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 343509006158 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 343509006159 dimer interface [polypeptide binding]; other site 343509006160 ssDNA binding site [nucleotide binding]; other site 343509006161 tetramer (dimer of dimers) interface [polypeptide binding]; other site 343509006162 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 343509006163 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 343509006164 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 343509006165 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509006166 ABC transporter signature motif; other site 343509006167 Walker B; other site 343509006168 D-loop; other site 343509006169 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 343509006170 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 343509006171 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 343509006172 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 343509006173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509006174 homodimer interface [polypeptide binding]; other site 343509006175 catalytic residue [active] 343509006176 replicative DNA helicase; Provisional; Region: PRK08006 343509006177 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 343509006178 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 343509006179 Walker A motif; other site 343509006180 ATP binding site [chemical binding]; other site 343509006181 Walker B motif; other site 343509006182 DNA binding loops [nucleotide binding] 343509006183 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 343509006184 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 343509006185 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 343509006186 Protein of unknown function (DUF917); Region: DUF917; pfam06032 343509006187 PAS fold; Region: PAS_4; pfam08448 343509006188 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509006189 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 343509006190 DNA binding residues [nucleotide binding] 343509006191 dimerization interface [polypeptide binding]; other site 343509006192 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 343509006193 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 343509006194 FMN binding site [chemical binding]; other site 343509006195 active site 343509006196 catalytic residues [active] 343509006197 substrate binding site [chemical binding]; other site 343509006198 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 343509006199 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 343509006200 DNA binding residues [nucleotide binding] 343509006201 dimerization interface [polypeptide binding]; other site 343509006202 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 343509006203 ferric uptake regulator; Provisional; Region: fur; PRK09462 343509006204 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 343509006205 metal binding site 2 [ion binding]; metal-binding site 343509006206 putative DNA binding helix; other site 343509006207 metal binding site 1 [ion binding]; metal-binding site 343509006208 dimer interface [polypeptide binding]; other site 343509006209 structural Zn2+ binding site [ion binding]; other site 343509006210 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509006211 LexA repressor; Validated; Region: PRK00215 343509006212 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 343509006213 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 343509006214 Catalytic site [active] 343509006215 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 343509006216 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 343509006217 putative acyl-acceptor binding pocket; other site 343509006218 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 343509006219 UbiA prenyltransferase family; Region: UbiA; pfam01040 343509006220 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 343509006221 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 343509006222 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 343509006223 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 343509006224 active site 343509006225 dimer interface [polypeptide binding]; other site 343509006226 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 343509006227 dimer interface [polypeptide binding]; other site 343509006228 active site 343509006229 aspartate kinase III; Validated; Region: PRK09084 343509006230 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 343509006231 nucleotide binding site [chemical binding]; other site 343509006232 substrate binding site [chemical binding]; other site 343509006233 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 343509006234 lysine allosteric regulatory site; other site 343509006235 dimer interface [polypeptide binding]; other site 343509006236 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 343509006237 dimer interface [polypeptide binding]; other site 343509006238 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 343509006239 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 343509006240 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 343509006241 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 343509006242 dimer interface [polypeptide binding]; other site 343509006243 conserved gate region; other site 343509006244 putative PBP binding loops; other site 343509006245 ABC-ATPase subunit interface; other site 343509006246 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 343509006247 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 343509006248 ATP-binding site [chemical binding]; other site 343509006249 Gluconate-6-phosphate binding site [chemical binding]; other site 343509006250 Shikimate kinase; Region: SKI; pfam01202 343509006251 homoserine O-succinyltransferase; Provisional; Region: PRK05368 343509006252 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 343509006253 proposed active site lysine [active] 343509006254 conserved cys residue [active] 343509006255 glutamate racemase; Provisional; Region: PRK00865 343509006256 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 343509006257 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 343509006258 S-adenosylmethionine binding site [chemical binding]; other site 343509006259 Protein of unknown function (DUF1422); Region: DUF1422; pfam07226 343509006260 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 343509006261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509006262 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 343509006263 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 343509006264 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 343509006265 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 343509006266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509006267 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 343509006268 dimerization interface [polypeptide binding]; other site 343509006269 argininosuccinate lyase; Provisional; Region: PRK04833 343509006270 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 343509006271 active sites [active] 343509006272 tetramer interface [polypeptide binding]; other site 343509006273 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 343509006274 nucleotide binding site [chemical binding]; other site 343509006275 substrate binding site [chemical binding]; other site 343509006276 acetylornithine deacetylase; Provisional; Region: PRK05111 343509006277 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 343509006278 metal binding site [ion binding]; metal-binding site 343509006279 putative dimer interface [polypeptide binding]; other site 343509006280 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 343509006281 FAD binding site [chemical binding]; other site 343509006282 cystathionine gamma-synthase; Provisional; Region: PRK08045 343509006283 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 343509006284 homodimer interface [polypeptide binding]; other site 343509006285 substrate-cofactor binding pocket; other site 343509006286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509006287 catalytic residue [active] 343509006288 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 343509006289 dimerization interface [polypeptide binding]; other site 343509006290 DNA binding site [nucleotide binding] 343509006291 corepressor binding sites; other site 343509006292 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 343509006293 primosome assembly protein PriA; Validated; Region: PRK05580 343509006294 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 343509006295 ATP binding site [chemical binding]; other site 343509006296 putative Mg++ binding site [ion binding]; other site 343509006297 helicase superfamily c-terminal domain; Region: HELICc; smart00490 343509006298 ATP-binding site [chemical binding]; other site 343509006299 essential cell division protein FtsN; Provisional; Region: PRK10927 343509006300 cell division protein FtsN; Provisional; Region: PRK12757 343509006301 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 343509006302 active site 343509006303 HslU subunit interaction site [polypeptide binding]; other site 343509006304 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 343509006305 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 343509006306 Walker A motif; other site 343509006307 ATP binding site [chemical binding]; other site 343509006308 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 343509006309 Walker B motif; other site 343509006310 arginine finger; other site 343509006311 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 343509006312 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 343509006313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 343509006314 glycerol kinase; Provisional; Region: glpK; PRK00047 343509006315 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 343509006316 N- and C-terminal domain interface [polypeptide binding]; other site 343509006317 active site 343509006318 MgATP binding site [chemical binding]; other site 343509006319 catalytic site [active] 343509006320 metal binding site [ion binding]; metal-binding site 343509006321 glycerol binding site [chemical binding]; other site 343509006322 homotetramer interface [polypeptide binding]; other site 343509006323 homodimer interface [polypeptide binding]; other site 343509006324 FBP binding site [chemical binding]; other site 343509006325 protein IIAGlc interface [polypeptide binding]; other site 343509006326 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 343509006327 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 343509006328 putative substrate translocation pore; other site 343509006329 ferredoxin-NADP reductase; Provisional; Region: PRK10926 343509006330 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 343509006331 FAD binding pocket [chemical binding]; other site 343509006332 FAD binding motif [chemical binding]; other site 343509006333 phosphate binding motif [ion binding]; other site 343509006334 beta-alpha-beta structure motif; other site 343509006335 NAD binding pocket [chemical binding]; other site 343509006336 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 343509006337 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 343509006338 triosephosphate isomerase; Provisional; Region: PRK14567 343509006339 substrate binding site [chemical binding]; other site 343509006340 dimer interface [polypeptide binding]; other site 343509006341 catalytic triad [active] 343509006342 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 343509006343 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 343509006344 membrane-bound complex binding site; other site 343509006345 hinge residues; other site 343509006346 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 343509006347 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 343509006348 active site 343509006349 ADP/pyrophosphate binding site [chemical binding]; other site 343509006350 dimerization interface [polypeptide binding]; other site 343509006351 allosteric effector site; other site 343509006352 fructose-1,6-bisphosphate binding site; other site 343509006353 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 343509006354 dimer interface [polypeptide binding]; other site 343509006355 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 343509006356 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 343509006357 active site 343509006358 intermolecular recognition site; other site 343509006359 dimerization interface [polypeptide binding]; other site 343509006360 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 343509006361 DNA binding site [nucleotide binding] 343509006362 two-component sensor protein; Provisional; Region: cpxA; PRK09470 343509006363 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 343509006364 dimerization interface [polypeptide binding]; other site 343509006365 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 343509006366 dimer interface [polypeptide binding]; other site 343509006367 phosphorylation site [posttranslational modification] 343509006368 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 343509006369 ATP binding site [chemical binding]; other site 343509006370 Mg2+ binding site [ion binding]; other site 343509006371 G-X-G motif; other site 343509006372 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 343509006373 serine acetyltransferase; Provisional; Region: cysE; PRK11132 343509006374 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 343509006375 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 343509006376 trimer interface [polypeptide binding]; other site 343509006377 active site 343509006378 substrate binding site [chemical binding]; other site 343509006379 CoA binding site [chemical binding]; other site 343509006380 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 343509006381 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 343509006382 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 343509006383 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 343509006384 SecA binding site; other site 343509006385 Preprotein binding site; other site 343509006386 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 343509006387 GSH binding site [chemical binding]; other site 343509006388 catalytic residues [active] 343509006389 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 343509006390 active site residue [active] 343509006391 AmiB activator; Provisional; Region: PRK11637 343509006392 Peptidase family M23; Region: Peptidase_M23; pfam01551 343509006393 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 343509006394 catalytic residue [active] 343509006395 Phage minor tail protein L; Region: Phage_tail_L; cl01908 343509006396 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 343509006397 NodB motif; other site 343509006398 putative active site [active] 343509006399 putative catalytic site [active] 343509006400 Zn binding site [ion binding]; other site 343509006401 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 343509006402 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 343509006403 NADP binding site [chemical binding]; other site 343509006404 homopentamer interface [polypeptide binding]; other site 343509006405 substrate binding site [chemical binding]; other site 343509006406 active site 343509006407 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 343509006408 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 343509006409 putative active site [active] 343509006410 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 343509006411 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 343509006412 putative active site [active] 343509006413 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 343509006414 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 343509006415 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 343509006416 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 343509006417 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 343509006418 putative active site [active] 343509006419 putative catalytic site [active] 343509006420 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 343509006421 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 343509006422 putative ADP-binding pocket [chemical binding]; other site 343509006423 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 343509006424 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 343509006425 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 343509006426 putative active site [active] 343509006427 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 343509006428 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 343509006429 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 343509006430 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 343509006431 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 343509006432 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 343509006433 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 343509006434 putative metal binding site; other site 343509006435 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 343509006436 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 343509006437 active site 343509006438 (T/H)XGH motif; other site 343509006439 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 343509006440 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 343509006441 DNA binding site [nucleotide binding] 343509006442 catalytic residue [active] 343509006443 H2TH interface [polypeptide binding]; other site 343509006444 putative catalytic residues [active] 343509006445 turnover-facilitating residue; other site 343509006446 intercalation triad [nucleotide binding]; other site 343509006447 8OG recognition residue [nucleotide binding]; other site 343509006448 putative reading head residues; other site 343509006449 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 343509006450 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 343509006451 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 343509006452 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 343509006453 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 343509006454 Flavoprotein; Region: Flavoprotein; pfam02441 343509006455 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 343509006456 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 343509006457 trimer interface [polypeptide binding]; other site 343509006458 active site 343509006459 division inhibitor protein; Provisional; Region: slmA; PRK09480 343509006460 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 343509006461 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 343509006462 active site 343509006463 ribonuclease PH; Reviewed; Region: rph; PRK00173 343509006464 Ribonuclease PH; Region: RNase_PH_bact; cd11362 343509006465 hexamer interface [polypeptide binding]; other site 343509006466 active site 343509006467 hypothetical protein; Provisional; Region: PRK11820 343509006468 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 343509006469 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 343509006470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 343509006471 Transposase; Region: DEDD_Tnp_IS110; pfam01548 343509006472 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 343509006473 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 343509006474 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 343509006475 nudix motif; other site 343509006476 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; cl14883 343509006477 nucleophilic elbow; other site 343509006478 catalytic triad; other site 343509006479 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 343509006480 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 343509006481 malonyl-CoA binding site [chemical binding]; other site 343509006482 dimer interface [polypeptide binding]; other site 343509006483 active site 343509006484 product binding site; other site 343509006485 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 343509006486 MarR family; Region: MarR; pfam01047 343509006487 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 343509006488 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 343509006489 catalytic site [active] 343509006490 G-X2-G-X-G-K; other site 343509006491 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 343509006492 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 343509006493 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 343509006494 Zn2+ binding site [ion binding]; other site 343509006495 Mg2+ binding site [ion binding]; other site 343509006496 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 343509006497 synthetase active site [active] 343509006498 NTP binding site [chemical binding]; other site 343509006499 metal binding site [ion binding]; metal-binding site 343509006500 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 343509006501 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 343509006502 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 343509006503 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 343509006504 generic binding surface II; other site 343509006505 ssDNA binding site; other site 343509006506 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 343509006507 ATP binding site [chemical binding]; other site 343509006508 putative Mg++ binding site [ion binding]; other site 343509006509 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 343509006510 nucleotide binding region [chemical binding]; other site 343509006511 ATP-binding site [chemical binding]; other site 343509006512 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 343509006513 putative active site [active] 343509006514 dimerization interface [polypeptide binding]; other site 343509006515 putative tRNAtyr binding site [nucleotide binding]; other site 343509006516 hypothetical protein; Reviewed; Region: PRK01637 343509006517 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 343509006518 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 343509006519 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 343509006520 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 343509006521 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 343509006522 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 343509006523 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 343509006524 G1 box; other site 343509006525 putative GEF interaction site [polypeptide binding]; other site 343509006526 GTP/Mg2+ binding site [chemical binding]; other site 343509006527 Switch I region; other site 343509006528 G2 box; other site 343509006529 G3 box; other site 343509006530 Switch II region; other site 343509006531 G4 box; other site 343509006532 G5 box; other site 343509006533 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 343509006534 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 343509006535 glutamine synthetase; Provisional; Region: glnA; PRK09469 343509006536 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 343509006537 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 343509006538 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 343509006539 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 343509006540 dimer interface [polypeptide binding]; other site 343509006541 phosphorylation site [posttranslational modification] 343509006542 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 343509006543 ATP binding site [chemical binding]; other site 343509006544 Mg2+ binding site [ion binding]; other site 343509006545 G-X-G motif; other site 343509006546 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 343509006547 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 343509006548 active site 343509006549 phosphorylation site [posttranslational modification] 343509006550 intermolecular recognition site; other site 343509006551 dimerization interface [polypeptide binding]; other site 343509006552 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 343509006553 Walker A motif; other site 343509006554 ATP binding site [chemical binding]; other site 343509006555 Walker B motif; other site 343509006556 arginine finger; other site 343509006557 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 343509006558 Der GTPase activator (YihI); Region: YihI; pfam04220 343509006559 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 343509006560 G1 box; other site 343509006561 GTP/Mg2+ binding site [chemical binding]; other site 343509006562 Switch I region; other site 343509006563 G2 box; other site 343509006564 G3 box; other site 343509006565 Switch II region; other site 343509006566 G4 box; other site 343509006567 G5 box; other site 343509006568 DNA polymerase I; Provisional; Region: PRK05755 343509006569 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 343509006570 active site 343509006571 metal binding site 1 [ion binding]; metal-binding site 343509006572 putative 5' ssDNA interaction site; other site 343509006573 metal binding site 3; metal-binding site 343509006574 metal binding site 2 [ion binding]; metal-binding site 343509006575 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 343509006576 putative DNA binding site [nucleotide binding]; other site 343509006577 putative metal binding site [ion binding]; other site 343509006578 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 343509006579 active site 343509006580 catalytic site [active] 343509006581 substrate binding site [chemical binding]; other site 343509006582 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 343509006583 active site 343509006584 DNA binding site [nucleotide binding] 343509006585 catalytic site [active] 343509006586 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 343509006587 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 343509006588 catalytic residues [active] 343509006589 hinge region; other site 343509006590 alpha helical domain; other site 343509006591 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 343509006592 serine/threonine protein kinase; Provisional; Region: PRK11768 343509006593 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 343509006594 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 343509006595 Walker A motif; other site 343509006596 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 343509006597 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 343509006598 trimer interface [polypeptide binding]; other site 343509006599 putative metal binding site [ion binding]; other site 343509006600 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 343509006601 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 343509006602 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 343509006603 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 343509006604 NAD(P) binding site [chemical binding]; other site 343509006605 shikimate binding site; other site 343509006606 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 343509006607 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 343509006608 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 343509006609 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 343509006610 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 343509006611 hypothetical protein; Validated; Region: PRK03430 343509006612 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 343509006613 active site 343509006614 catalytic residues [active] 343509006615 metal binding site [ion binding]; metal-binding site 343509006616 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 343509006617 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 343509006618 putative active site [active] 343509006619 substrate binding site [chemical binding]; other site 343509006620 putative cosubstrate binding site; other site 343509006621 catalytic site [active] 343509006622 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 343509006623 substrate binding site [chemical binding]; other site 343509006624 16S rRNA methyltransferase B; Provisional; Region: PRK10901 343509006625 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 343509006626 putative RNA binding site [nucleotide binding]; other site 343509006627 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 343509006628 S-adenosylmethionine binding site [chemical binding]; other site 343509006629 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 343509006630 TrkA-N domain; Region: TrkA_N; pfam02254 343509006631 TrkA-C domain; Region: TrkA_C; pfam02080 343509006632 TrkA-N domain; Region: TrkA_N; pfam02254 343509006633 TrkA-C domain; Region: TrkA_C; pfam02080 343509006634 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 343509006635 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 343509006636 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 343509006637 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 343509006638 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 343509006639 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 343509006640 alphaNTD homodimer interface [polypeptide binding]; other site 343509006641 alphaNTD - beta interaction site [polypeptide binding]; other site 343509006642 alphaNTD - beta' interaction site [polypeptide binding]; other site 343509006643 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 343509006644 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 343509006645 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 343509006646 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 343509006647 RNA binding surface [nucleotide binding]; other site 343509006648 30S ribosomal protein S11; Validated; Region: PRK05309 343509006649 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 343509006650 30S ribosomal protein S13; Region: bact_S13; TIGR03631 343509006651 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 343509006652 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 343509006653 SecY translocase; Region: SecY; pfam00344 343509006654 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 343509006655 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 343509006656 23S rRNA binding site [nucleotide binding]; other site 343509006657 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 343509006658 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 343509006659 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 343509006660 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 343509006661 5S rRNA interface [nucleotide binding]; other site 343509006662 23S rRNA interface [nucleotide binding]; other site 343509006663 L5 interface [polypeptide binding]; other site 343509006664 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 343509006665 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 343509006666 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 343509006667 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 343509006668 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 343509006669 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 343509006670 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 343509006671 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 343509006672 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 343509006673 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 343509006674 RNA binding site [nucleotide binding]; other site 343509006675 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 343509006676 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 343509006677 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 343509006678 23S rRNA interface [nucleotide binding]; other site 343509006679 putative translocon interaction site; other site 343509006680 signal recognition particle (SRP54) interaction site; other site 343509006681 L23 interface [polypeptide binding]; other site 343509006682 trigger factor interaction site; other site 343509006683 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 343509006684 23S rRNA interface [nucleotide binding]; other site 343509006685 5S rRNA interface [nucleotide binding]; other site 343509006686 putative antibiotic binding site [chemical binding]; other site 343509006687 L25 interface [polypeptide binding]; other site 343509006688 L27 interface [polypeptide binding]; other site 343509006689 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 343509006690 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 343509006691 G-X-X-G motif; other site 343509006692 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 343509006693 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 343509006694 protein-rRNA interface [nucleotide binding]; other site 343509006695 putative translocon binding site; other site 343509006696 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 343509006697 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 343509006698 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 343509006699 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 343509006700 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 343509006701 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 343509006702 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 343509006703 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 343509006704 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 343509006705 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 343509006706 heme binding site [chemical binding]; other site 343509006707 ferroxidase pore; other site 343509006708 ferroxidase diiron center [ion binding]; other site 343509006709 Transmembrane secretion effector; Region: MFS_3; pfam05977 343509006710 elongation factor Tu; Reviewed; Region: PRK00049 343509006711 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 343509006712 G1 box; other site 343509006713 GEF interaction site [polypeptide binding]; other site 343509006714 GTP/Mg2+ binding site [chemical binding]; other site 343509006715 Switch I region; other site 343509006716 G2 box; other site 343509006717 G3 box; other site 343509006718 Switch II region; other site 343509006719 G4 box; other site 343509006720 G5 box; other site 343509006721 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 343509006722 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 343509006723 Antibiotic Binding Site [chemical binding]; other site 343509006724 elongation factor G; Reviewed; Region: PRK00007 343509006725 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 343509006726 G1 box; other site 343509006727 putative GEF interaction site [polypeptide binding]; other site 343509006728 GTP/Mg2+ binding site [chemical binding]; other site 343509006729 Switch I region; other site 343509006730 G2 box; other site 343509006731 G3 box; other site 343509006732 Switch II region; other site 343509006733 G4 box; other site 343509006734 G5 box; other site 343509006735 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 343509006736 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 343509006737 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 343509006738 30S ribosomal protein S7; Validated; Region: PRK05302 343509006739 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 343509006740 S17 interaction site [polypeptide binding]; other site 343509006741 S8 interaction site; other site 343509006742 16S rRNA interaction site [nucleotide binding]; other site 343509006743 streptomycin interaction site [chemical binding]; other site 343509006744 23S rRNA interaction site [nucleotide binding]; other site 343509006745 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 343509006746 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 343509006747 sulfur relay protein TusC; Validated; Region: PRK00211 343509006748 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 343509006749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 343509006750 YheO-like PAS domain; Region: PAS_6; pfam08348 343509006751 HTH domain; Region: HTH_22; pfam13309 343509006752 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 343509006753 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 343509006754 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 343509006755 phi X174 lysis protein; Provisional; Region: PRK02793 343509006756 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 343509006757 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 343509006758 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 343509006759 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 343509006760 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 343509006761 TrkA-N domain; Region: TrkA_N; pfam02254 343509006762 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 343509006763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 343509006764 Walker A/P-loop; other site 343509006765 ATP binding site [chemical binding]; other site 343509006766 Q-loop/lid; other site 343509006767 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509006768 ABC transporter signature motif; other site 343509006769 Walker B; other site 343509006770 D-loop; other site 343509006771 ABC transporter; Region: ABC_tran_2; pfam12848 343509006772 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 343509006773 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 343509006774 hypothetical protein; Provisional; Region: PRK04966 343509006775 phosphoribulokinase; Provisional; Region: PRK15453 343509006776 hypothetical protein; Provisional; Region: PRK10738 343509006777 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 343509006778 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 343509006779 ligand binding site [chemical binding]; other site 343509006780 flexible hinge region; other site 343509006781 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 343509006782 putative switch regulator; other site 343509006783 non-specific DNA interactions [nucleotide binding]; other site 343509006784 DNA binding site [nucleotide binding] 343509006785 sequence specific DNA binding site [nucleotide binding]; other site 343509006786 putative cAMP binding site [chemical binding]; other site 343509006787 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 343509006788 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 343509006789 glutamine binding [chemical binding]; other site 343509006790 catalytic triad [active] 343509006791 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 343509006792 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 343509006793 substrate binding site [chemical binding]; other site 343509006794 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 343509006795 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 343509006796 active site 343509006797 HIGH motif; other site 343509006798 dimer interface [polypeptide binding]; other site 343509006799 KMSKS motif; other site 343509006800 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 343509006801 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 343509006802 substrate binding site [chemical binding]; other site 343509006803 hexamer interface [polypeptide binding]; other site 343509006804 metal binding site [ion binding]; metal-binding site 343509006805 DNA adenine methylase; Provisional; Region: PRK10904 343509006806 hypothetical protein; Reviewed; Region: PRK11901 343509006807 cell division protein DamX; Validated; Region: PRK10905 343509006808 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 343509006809 active site 343509006810 dimer interface [polypeptide binding]; other site 343509006811 metal binding site [ion binding]; metal-binding site 343509006812 shikimate kinase; Reviewed; Region: aroK; PRK00131 343509006813 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 343509006814 ADP binding site [chemical binding]; other site 343509006815 magnesium binding site [ion binding]; other site 343509006816 putative shikimate binding site; other site 343509006817 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 343509006818 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 343509006819 Transglycosylase; Region: Transgly; pfam00912 343509006820 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 343509006821 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 343509006822 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 343509006823 dimer interface [polypeptide binding]; other site 343509006824 ADP-ribose binding site [chemical binding]; other site 343509006825 active site 343509006826 nudix motif; other site 343509006827 metal binding site [ion binding]; metal-binding site 343509006828 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 343509006829 GMP/IMP nucleotidase; Provisional; Region: PRK14988 343509006830 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 343509006831 motif II; other site 343509006832 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 343509006833 RNA binding surface [nucleotide binding]; other site 343509006834 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 343509006835 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 343509006836 dimerization interface [polypeptide binding]; other site 343509006837 domain crossover interface; other site 343509006838 redox-dependent activation switch; other site 343509006839 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 343509006840 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 343509006841 active site 343509006842 substrate-binding site [chemical binding]; other site 343509006843 metal-binding site [ion binding] 343509006844 ATP binding site [chemical binding]; other site 343509006845 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 343509006846 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 343509006847 dimerization interface [polypeptide binding]; other site 343509006848 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 343509006849 dimer interface [polypeptide binding]; other site 343509006850 phosphorylation site [posttranslational modification] 343509006851 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 343509006852 ATP binding site [chemical binding]; other site 343509006853 Mg2+ binding site [ion binding]; other site 343509006854 G-X-G motif; other site 343509006855 osmolarity response regulator; Provisional; Region: ompR; PRK09468 343509006856 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 343509006857 active site 343509006858 phosphorylation site [posttranslational modification] 343509006859 intermolecular recognition site; other site 343509006860 dimerization interface [polypeptide binding]; other site 343509006861 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 343509006862 DNA binding site [nucleotide binding] 343509006863 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 343509006864 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 343509006865 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 343509006866 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 343509006867 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 343509006868 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 343509006869 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 343509006870 RNA binding site [nucleotide binding]; other site 343509006871 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 343509006872 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 343509006873 sucrose phosphorylase; Provisional; Region: PRK13840 343509006874 active site 343509006875 homodimer interface [polypeptide binding]; other site 343509006876 catalytic site [active] 343509006877 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 343509006878 carboxylesterase BioH; Provisional; Region: PRK10349 343509006879 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 343509006880 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 343509006881 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 343509006882 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 343509006883 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 343509006884 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 343509006885 intramembrane serine protease GlpG; Provisional; Region: PRK10907 343509006886 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 343509006887 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 343509006888 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 343509006889 active site residue [active] 343509006890 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 343509006891 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 343509006892 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 343509006893 putative antibiotic transporter; Provisional; Region: PRK10739 343509006894 high-affinity gluconate transporter; Provisional; Region: PRK14984 343509006895 gluconate transporter; Region: gntP; TIGR00791 343509006896 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 343509006897 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 343509006898 DNA binding site [nucleotide binding] 343509006899 domain linker motif; other site 343509006900 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 343509006901 putative ligand binding site [chemical binding]; other site 343509006902 putative dimerization interface [polypeptide binding]; other site 343509006903 Pirin-related protein [General function prediction only]; Region: COG1741 343509006904 Pirin; Region: Pirin; pfam02678 343509006905 putative hydrolase; Provisional; Region: PRK10976 343509006906 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 343509006907 active site 343509006908 motif I; other site 343509006909 motif II; other site 343509006910 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 343509006911 LysE type translocator; Region: LysE; cl00565 343509006912 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 343509006913 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 343509006914 ATP binding site [chemical binding]; other site 343509006915 putative Mg++ binding site [ion binding]; other site 343509006916 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 343509006917 nucleotide binding region [chemical binding]; other site 343509006918 ATP-binding site [chemical binding]; other site 343509006919 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 343509006920 HRDC domain; Region: HRDC; pfam00570 343509006921 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 343509006922 dimerization interface [polypeptide binding]; other site 343509006923 substrate binding site [chemical binding]; other site 343509006924 active site 343509006925 calcium binding site [ion binding]; other site 343509006926 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 343509006927 CoenzymeA binding site [chemical binding]; other site 343509006928 subunit interaction site [polypeptide binding]; other site 343509006929 PHB binding site; other site 343509006930 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 343509006931 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 343509006932 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 343509006933 Cl binding site [ion binding]; other site 343509006934 oligomer interface [polypeptide binding]; other site 343509006935 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 343509006936 Part of AAA domain; Region: AAA_19; pfam13245 343509006937 Family description; Region: UvrD_C_2; pfam13538 343509006938 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 343509006939 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 343509006940 motif II; other site 343509006941 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 343509006942 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 343509006943 active site 343509006944 DNA binding site [nucleotide binding] 343509006945 Int/Topo IB signature motif; other site 343509006946 hypothetical protein; Provisional; Region: PRK10963 343509006947 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 343509006948 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 343509006949 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 343509006950 adenylate cyclase; Provisional; Region: cyaA; PRK09450 343509006951 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 343509006952 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 343509006953 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 343509006954 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509006955 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 343509006956 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 343509006957 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 343509006958 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509006959 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 343509006960 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 343509006961 oligomerization interface [polypeptide binding]; other site 343509006962 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 343509006963 Phage capsid family; Region: Phage_capsid; pfam05065 343509006964 Phage head maturation protease [General function prediction only]; Region: COG3740 343509006965 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 343509006966 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 343509006967 active site 343509006968 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 343509006969 catalytic residue [active] 343509006970 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 343509006971 ORF6N domain; Region: ORF6N; pfam10543 343509006972 ORF6N domain; Region: ORF6N; pfam10543 343509006973 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 343509006974 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 343509006975 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 343509006976 domain interfaces; other site 343509006977 active site 343509006978 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 343509006979 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 343509006980 active site 343509006981 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 343509006982 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 343509006983 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 343509006984 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 343509006985 S-adenosylmethionine binding site [chemical binding]; other site 343509006986 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 343509006987 Transcriptional regulators [Transcription]; Region: PurR; COG1609 343509006988 DNA binding site [nucleotide binding] 343509006989 domain linker motif; other site 343509006990 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 343509006991 dimerization interface [polypeptide binding]; other site 343509006992 ligand binding site [chemical binding]; other site 343509006993 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509006994 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509006995 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 343509006996 extended (e) SDRs; Region: SDR_e; cd08946 343509006997 NAD(P) binding site [chemical binding]; other site 343509006998 active site 343509006999 substrate binding site [chemical binding]; other site 343509007000 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 343509007001 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 343509007002 WzyE protein; Region: WzyE; pfam06899 343509007003 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 343509007004 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 343509007005 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 343509007006 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 343509007007 inhibitor-cofactor binding pocket; inhibition site 343509007008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509007009 catalytic residue [active] 343509007010 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 343509007011 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 343509007012 Coenzyme A binding pocket [chemical binding]; other site 343509007013 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 343509007014 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 343509007015 substrate binding site; other site 343509007016 tetramer interface; other site 343509007017 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 343509007018 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 343509007019 NAD binding site [chemical binding]; other site 343509007020 substrate binding site [chemical binding]; other site 343509007021 homodimer interface [polypeptide binding]; other site 343509007022 active site 343509007023 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 343509007024 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 343509007025 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 343509007026 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 343509007027 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 343509007028 active site 343509007029 homodimer interface [polypeptide binding]; other site 343509007030 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 343509007031 Chain length determinant protein; Region: Wzz; pfam02706 343509007032 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 343509007033 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 343509007034 Mg++ binding site [ion binding]; other site 343509007035 putative catalytic motif [active] 343509007036 substrate binding site [chemical binding]; other site 343509007037 transcription termination factor Rho; Provisional; Region: rho; PRK09376 343509007038 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 343509007039 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 343509007040 RNA binding site [nucleotide binding]; other site 343509007041 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 343509007042 multimer interface [polypeptide binding]; other site 343509007043 Walker A motif; other site 343509007044 ATP binding site [chemical binding]; other site 343509007045 Walker B motif; other site 343509007046 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 343509007047 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 343509007048 catalytic residues [active] 343509007049 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 343509007050 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 343509007051 ATP binding site [chemical binding]; other site 343509007052 Mg++ binding site [ion binding]; other site 343509007053 motif III; other site 343509007054 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 343509007055 nucleotide binding region [chemical binding]; other site 343509007056 ATP-binding site [chemical binding]; other site 343509007057 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 343509007058 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 343509007059 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 343509007060 Part of AAA domain; Region: AAA_19; pfam13245 343509007061 Family description; Region: UvrD_C_2; pfam13538 343509007062 ketol-acid reductoisomerase; Validated; Region: PRK05225 343509007063 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 343509007064 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 343509007065 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 343509007066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509007067 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 343509007068 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 343509007069 putative dimerization interface [polypeptide binding]; other site 343509007070 threonine dehydratase; Reviewed; Region: PRK09224 343509007071 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 343509007072 tetramer interface [polypeptide binding]; other site 343509007073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509007074 catalytic residue [active] 343509007075 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 343509007076 putative Ile/Val binding site [chemical binding]; other site 343509007077 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 343509007078 putative Ile/Val binding site [chemical binding]; other site 343509007079 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 343509007080 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 343509007081 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 343509007082 homodimer interface [polypeptide binding]; other site 343509007083 substrate-cofactor binding pocket; other site 343509007084 catalytic residue [active] 343509007085 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 343509007086 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 343509007087 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 343509007088 PYR/PP interface [polypeptide binding]; other site 343509007089 dimer interface [polypeptide binding]; other site 343509007090 TPP binding site [chemical binding]; other site 343509007091 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 343509007092 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 343509007093 TPP-binding site [chemical binding]; other site 343509007094 dimer interface [polypeptide binding]; other site 343509007095 ilvG operon leader peptide; Provisional; Region: PRK10424 343509007096 hypothetical protein; Provisional; Region: PRK11027 343509007097 transcriptional regulator HdfR; Provisional; Region: PRK03601 343509007098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 343509007099 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 343509007100 dimerization interface [polypeptide binding]; other site 343509007101 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 343509007102 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 343509007103 potassium uptake protein; Region: kup; TIGR00794 343509007104 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 343509007105 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 343509007106 putative DNA binding site [nucleotide binding]; other site 343509007107 putative Zn2+ binding site [ion binding]; other site 343509007108 AsnC family; Region: AsnC_trans_reg; pfam01037 343509007109 FMN-binding protein MioC; Provisional; Region: PRK09004 343509007110 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 343509007111 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 343509007112 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 343509007113 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 343509007114 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 343509007115 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 343509007116 S-adenosylmethionine binding site [chemical binding]; other site 343509007117 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 343509007118 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 343509007119 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 343509007120 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 343509007121 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 343509007122 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 343509007123 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 343509007124 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 343509007125 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 343509007126 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 343509007127 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 343509007128 beta subunit interaction interface [polypeptide binding]; other site 343509007129 Walker A motif; other site 343509007130 ATP binding site [chemical binding]; other site 343509007131 Walker B motif; other site 343509007132 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 343509007133 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 343509007134 core domain interface [polypeptide binding]; other site 343509007135 delta subunit interface [polypeptide binding]; other site 343509007136 epsilon subunit interface [polypeptide binding]; other site 343509007137 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 343509007138 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 343509007139 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 343509007140 alpha subunit interaction interface [polypeptide binding]; other site 343509007141 Walker A motif; other site 343509007142 ATP binding site [chemical binding]; other site 343509007143 Walker B motif; other site 343509007144 inhibitor binding site; inhibition site 343509007145 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 343509007146 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 343509007147 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 343509007148 gamma subunit interface [polypeptide binding]; other site 343509007149 epsilon subunit interface [polypeptide binding]; other site 343509007150 LBP interface [polypeptide binding]; other site 343509007151 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 343509007152 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 343509007153 Substrate binding site; other site 343509007154 Mg++ binding site; other site 343509007155 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 343509007156 active site 343509007157 substrate binding site [chemical binding]; other site 343509007158 CoA binding site [chemical binding]; other site 343509007159 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 343509007160 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 343509007161 glutaminase active site [active] 343509007162 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 343509007163 dimer interface [polypeptide binding]; other site 343509007164 active site 343509007165 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 343509007166 dimer interface [polypeptide binding]; other site 343509007167 active site 343509007168 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 343509007169 substrate binding pocket [chemical binding]; other site 343509007170 membrane-bound complex binding site; other site 343509007171 hinge residues; other site 343509007172 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 343509007173 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 343509007174 dimer interface [polypeptide binding]; other site 343509007175 conserved gate region; other site 343509007176 putative PBP binding loops; other site 343509007177 ABC-ATPase subunit interface; other site 343509007178 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 343509007179 Walker A/P-loop; other site 343509007180 ATP binding site [chemical binding]; other site 343509007181 ABC transporter; Region: ABC_tran; pfam00005 343509007182 Q-loop/lid; other site 343509007183 ABC transporter signature motif; other site 343509007184 Walker B; other site 343509007185 D-loop; other site 343509007186 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; cl17915 343509007187 motif I; other site 343509007188 active site 343509007189 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; cl00021 343509007190 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 343509007191 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 343509007192 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 343509007193 conserved cys residue [active] 343509007194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 343509007195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 343509007196 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 343509007197 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; cl00021 343509007198 active site 343509007199 phosphorylation site [posttranslational modification] 343509007200 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 343509007201 active pocket/dimerization site; other site 343509007202 active site 343509007203 phosphorylation site [posttranslational modification] 343509007204 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 343509007205 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 343509007206 trmE is a tRNA modification GTPase; Region: trmE; cd04164 343509007207 G1 box; other site 343509007208 GTP/Mg2+ binding site [chemical binding]; other site 343509007209 Switch I region; other site 343509007210 G2 box; other site 343509007211 Switch II region; other site 343509007212 G3 box; other site 343509007213 G4 box; other site 343509007214 G5 box; other site 343509007215 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 343509007216 membrane protein insertase; Provisional; Region: PRK01318 343509007217 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 343509007218 hypothetical protein; Validated; Region: PRK00041 343509007219 ribonuclease P; Reviewed; Region: rnpA; PRK01732 343509007220 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 343509007221 Haemolysin expression modulating protein; Region: HHA; pfam05321 343509007222 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 343509007223 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 343509007224 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509007225 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 343509007226 DNA binding residues [nucleotide binding] 343509007227 dimerization interface [polypeptide binding]; other site 343509007228 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 343509007229 Walker A motif; other site 343509007230 ATP binding site [chemical binding]; other site 343509007231 Walker B motif; other site 343509007232 type IV secretion system component VirD4; Provisional; Region: PRK13897 343509007233 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 343509007234 IncFII RepA protein family; Region: IncFII_repA; pfam02387 343509007235 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 343509007236 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 343509007237 TraU protein; Region: TraU; cl06067 343509007238 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 343509007239 Type-F conjugative transfer system protein (TrbI_Ftype); Region: TrbI_Ftype; cl11515 343509007240 TraE protein; Region: TraE; cl05060 343509007241 conjugal transfer pilus assembly protein TraL; Provisional; Region: PRK13707 343509007242 PAS fold; Region: PAS_4; pfam08448 343509007243 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509007244 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 343509007245 DNA binding residues [nucleotide binding] 343509007246 dimerization interface [polypeptide binding]; other site 343509007247 Protein of unknown function (DUF1380); Region: DUF1380; pfam07128 343509007248 Antirestriction protein; Region: Antirestrict; pfam03230 343509007249 hypothetical protein; Provisional; Region: PRK09956 343509007250 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509007251 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 343509007252 Transposase; Region: HTH_Tnp_1; cl17663 343509007253 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 343509007254 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 343509007255 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 343509007256 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 343509007257 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 343509007258 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 343509007259 Walker A/P-loop; other site 343509007260 ATP binding site [chemical binding]; other site 343509007261 Q-loop/lid; other site 343509007262 ABC transporter signature motif; other site 343509007263 Walker B; other site 343509007264 D-loop; other site 343509007265 H-loop/switch region; other site 343509007266 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 343509007267 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 343509007268 ABC-ATPase subunit interface; other site 343509007269 dimer interface [polypeptide binding]; other site 343509007270 putative PBP binding regions; other site 343509007271 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 343509007272 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 343509007273 ABC-ATPase subunit interface; other site 343509007274 dimer interface [polypeptide binding]; other site 343509007275 putative PBP binding regions; other site 343509007276 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 343509007277 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 343509007278 siderophore binding site; other site 343509007279 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 343509007280 IucA / IucC family; Region: IucA_IucC; pfam04183 343509007281 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 343509007282 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 343509007283 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 343509007284 IucA / IucC family; Region: IucA_IucC; pfam04183 343509007285 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 343509007286 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 343509007287 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 343509007288 putative substrate translocation pore; other site 343509007289 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 343509007290 dimer interface [polypeptide binding]; other site 343509007291 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 343509007292 active site 343509007293 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 343509007294 catalytic residues [active] 343509007295 substrate binding site [chemical binding]; other site 343509007296 IucA / IucC family; Region: IucA_IucC; pfam04183 343509007297 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 343509007298 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 343509007299 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 343509007300 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 343509007301 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 343509007302 inhibitor-cofactor binding pocket; inhibition site 343509007303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 343509007304 catalytic residue [active] 343509007305 Transposase; Region: HTH_Tnp_1; cl17663 343509007306 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 343509007307 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 343509007308 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 343509007309 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 343509007310 putative dimer interface [polypeptide binding]; other site 343509007311 conjugal transfer protein TrbM; Provisional; Region: PRK13893 343509007312 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 343509007313 dimer interface [polypeptide binding]; other site 343509007314 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 343509007315 ssDNA binding site [nucleotide binding]; other site 343509007316 tetramer (dimer of dimers) interface [polypeptide binding]; other site 343509007317 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 343509007318 IHF - DNA interface [nucleotide binding]; other site 343509007319 IHF dimer interface [polypeptide binding]; other site 343509007320 ParA-like protein; Provisional; Region: PHA02518 343509007321 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 343509007322 P-loop; other site 343509007323 Magnesium ion binding site [ion binding]; other site 343509007324 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 343509007325 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 343509007326 Na binding site [ion binding]; other site 343509007327 Protein of unknown function (DUF917); Region: DUF917; pfam06032 343509007328 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 343509007329 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 343509007330 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 343509007331 PAS fold; Region: PAS_4; pfam08448 343509007332 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 343509007333 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 343509007334 DNA binding residues [nucleotide binding] 343509007335 IncFII RepA protein family; Region: IncFII_repA; pfam02387 343509007336 putative transposase; Provisional; Region: PRK09857 343509007337 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 343509007338 ProQ/FINO family; Region: ProQ; pfam04352 343509007339 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 343509007340 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 343509007341 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 343509007342 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 343509007343 N-acetyl-D-glucosamine binding site [chemical binding]; other site 343509007344 catalytic residue [active] 343509007345 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 343509007346 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754