-- dump date 20140619_092047 -- class Genbank::misc_feature -- table misc_feature_note -- id note 657319000001 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 657319000002 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 657319000003 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657319000004 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657319000005 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 657319000006 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657319000007 hypothetical protein; Provisional; Region: PRK13683 657319000008 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 657319000009 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 657319000010 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319000011 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 657319000012 non-specific DNA binding site [nucleotide binding]; other site 657319000013 salt bridge; other site 657319000014 sequence-specific DNA binding site [nucleotide binding]; other site 657319000015 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657319000016 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657319000017 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 657319000018 CBD_II domain; Region: CBD_II; smart00637 657319000019 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319000020 YhhN-like protein; Region: YhhN; pfam07947 657319000021 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 657319000022 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 657319000023 putative catalytic cysteine [active] 657319000024 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 657319000025 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; cd00578 657319000026 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657319000027 substrate binding site [chemical binding]; other site 657319000028 trimer interface [polypeptide binding]; other site 657319000029 Mn binding site [ion binding]; other site 657319000030 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]; Region: GyrB; COG0187 657319000031 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 657319000032 Mg2+ binding site [ion binding]; other site 657319000033 G-X-G motif; other site 657319000034 DNA gyrase B; Region: DNA_gyraseB; pfam00204 657319000035 ATP binding site [chemical binding]; other site 657319000036 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 657319000037 active site 657319000038 putative metal-binding site [ion binding]; other site 657319000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657319000040 HD domain; Region: HD; pfam01966 657319000041 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 657319000042 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 657319000043 Potassium binding sites [ion binding]; other site 657319000044 Cesium cation binding sites [ion binding]; other site 657319000045 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 657319000046 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657319000047 Glycoprotease family; Region: Peptidase_M22; pfam00814 657319000048 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 657319000049 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657319000050 active site 657319000051 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 657319000052 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 657319000053 Walker A/P-loop; other site 657319000054 ATP binding site [chemical binding]; other site 657319000055 Q-loop/lid; other site 657319000056 ABC transporter signature motif; other site 657319000057 Walker B; other site 657319000058 D-loop; other site 657319000059 H-loop/switch region; other site 657319000060 TOBE domain; Region: TOBE_2; pfam08402 657319000061 germination protein YpeB; Region: spore_YpeB; TIGR02889 657319000062 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 657319000063 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 657319000064 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 657319000065 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 657319000066 Ligand Binding Site [chemical binding]; other site 657319000067 Competence-damaged protein; Region: CinA; pfam02464 657319000068 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657319000069 active site 657319000070 catalytic site [active] 657319000071 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657319000072 active site 657319000073 catalytic site [active] 657319000074 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 657319000075 Stage II sporulation protein; Region: SpoIID; pfam08486 657319000076 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 657319000077 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657319000078 PYR/PP interface [polypeptide binding]; other site 657319000079 dimer interface [polypeptide binding]; other site 657319000080 TPP binding site [chemical binding]; other site 657319000081 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657319000082 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 657319000083 TPP-binding site [chemical binding]; other site 657319000084 dimer interface [polypeptide binding]; other site 657319000085 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 657319000086 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 657319000087 putative valine binding site [chemical binding]; other site 657319000088 dimer interface [polypeptide binding]; other site 657319000089 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657319000090 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 657319000091 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 657319000092 substrate binding site [chemical binding]; other site 657319000093 ligand binding site [chemical binding]; other site 657319000094 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 657319000095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319000096 Coenzyme A binding pocket [chemical binding]; other site 657319000097 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 657319000098 tartrate dehydrogenase; Region: TTC; TIGR02089 657319000099 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657319000100 EamA-like transporter family; Region: EamA; pfam00892 657319000101 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 657319000102 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657319000103 active site 657319000104 HIGH motif; other site 657319000105 nucleotide binding site [chemical binding]; other site 657319000106 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 657319000107 active site 657319000108 KMSKS motif; other site 657319000109 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 657319000110 tRNA binding surface [nucleotide binding]; other site 657319000111 anticodon binding site; other site 657319000112 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 657319000113 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657319000114 Double zinc ribbon; Region: DZR; pfam12773 657319000115 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 657319000116 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657319000117 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657319000118 ABC transporter; Region: ABC_tran_2; pfam12848 657319000119 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657319000120 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 657319000121 Bacterial transcriptional activator domain; Region: BTAD; smart01043 657319000122 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 657319000123 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 657319000124 Walker A motif; other site 657319000125 ATP binding site [chemical binding]; other site 657319000126 Walker B motif; other site 657319000127 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 657319000128 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 657319000129 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 657319000130 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657319000131 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 657319000132 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 657319000133 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 657319000134 S-adenosylmethionine binding site [chemical binding]; other site 657319000135 DNA repair protein RadA; Provisional; Region: PRK11823 657319000136 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 657319000137 Walker A motif/ATP binding site; other site 657319000138 ATP binding site [chemical binding]; other site 657319000139 Walker B motif; other site 657319000140 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657319000141 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 657319000142 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 657319000143 active site 657319000144 metal binding site [ion binding]; metal-binding site 657319000145 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657319000146 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657319000147 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657319000148 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 657319000149 dimer interface [polypeptide binding]; other site 657319000150 conserved gate region; other site 657319000151 putative PBP binding loops; other site 657319000152 ABC-ATPase subunit interface; other site 657319000153 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657319000154 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 657319000155 dimer interface [polypeptide binding]; other site 657319000156 conserved gate region; other site 657319000157 ABC-ATPase subunit interface; other site 657319000158 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657319000159 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657319000160 Walker A/P-loop; other site 657319000161 ATP binding site [chemical binding]; other site 657319000162 Q-loop/lid; other site 657319000163 ABC transporter signature motif; other site 657319000164 Walker B; other site 657319000165 D-loop; other site 657319000166 H-loop/switch region; other site 657319000167 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657319000168 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657319000169 Walker A/P-loop; other site 657319000170 ATP binding site [chemical binding]; other site 657319000171 Q-loop/lid; other site 657319000172 ABC transporter signature motif; other site 657319000173 Walker B; other site 657319000174 D-loop; other site 657319000175 H-loop/switch region; other site 657319000176 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 657319000177 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657319000178 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 657319000179 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 657319000180 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 657319000181 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 657319000182 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 657319000183 glycyl-tRNA synthetase; Provisional; Region: PRK04173 657319000184 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 657319000185 motif 1; other site 657319000186 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 657319000187 active site 657319000188 motif 2; other site 657319000189 motif 3; other site 657319000190 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 657319000191 anticodon binding site; other site 657319000192 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 657319000193 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 657319000194 homodimer interface [polypeptide binding]; other site 657319000195 substrate-cofactor binding pocket; other site 657319000196 catalytic residue [active] 657319000197 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 657319000198 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657319000199 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657319000200 DNA binding site [nucleotide binding] 657319000201 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 657319000202 ligand binding site [chemical binding]; other site 657319000203 dimerization interface [polypeptide binding]; other site 657319000204 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; cd00578 657319000205 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657319000206 trimer interface [polypeptide binding]; other site 657319000207 substrate binding site [chemical binding]; other site 657319000208 Mn binding site [ion binding]; other site 657319000209 transketolase; Reviewed; Region: PRK05899 657319000210 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 657319000211 TPP-binding site [chemical binding]; other site 657319000212 dimer interface [polypeptide binding]; other site 657319000213 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 657319000214 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 657319000215 PYR/PP interface [polypeptide binding]; other site 657319000216 dimer interface [polypeptide binding]; other site 657319000217 TPP binding site [chemical binding]; other site 657319000218 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657319000219 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 657319000220 Uncharacterized subgroup; belongs to the glycerol kinases subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GK_1; cd10427 657319000221 N- and C-terminal domain interface [polypeptide binding]; other site 657319000222 active site 657319000223 MgATP binding site [chemical binding]; other site 657319000224 catalytic site [active] 657319000225 metal binding site [ion binding]; metal-binding site 657319000226 putative glycerol binding site [chemical binding]; other site 657319000227 putative homotetramer interface [polypeptide binding]; other site 657319000228 putative homodimer interface [polypeptide binding]; other site 657319000229 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 657319000230 intersubunit interactions; other site 657319000231 active site 657319000232 catalytic residue [active] 657319000233 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 657319000234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657319000235 WHG domain; Region: WHG; pfam13305 657319000236 Predicted transcriptional regulator [Transcription]; Region: COG2378 657319000237 HTH domain; Region: HTH_11; pfam08279 657319000238 WYL domain; Region: WYL; pfam13280 657319000239 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657319000240 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 657319000241 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 657319000242 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 657319000243 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657319000244 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657319000245 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657319000246 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 657319000247 active site 657319000248 DNA binding site [nucleotide binding] 657319000249 Int/Topo IB signature motif; other site 657319000250 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657319000251 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657319000252 HsdM N-terminal domain; Region: HsdM_N; pfam12161 657319000253 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 657319000254 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657319000255 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657319000256 sequence-specific DNA binding site [nucleotide binding]; other site 657319000257 salt bridge; other site 657319000258 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 657319000259 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 657319000260 ParB-like nuclease domain; Region: ParBc; pfam02195 657319000261 Transposon-encoded protein TnpW; Region: TnpW; pfam14202 657319000262 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319000263 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 657319000264 catalytic residues [active] 657319000265 catalytic nucleophile [active] 657319000266 Recombinase; Region: Recombinase; pfam07508 657319000267 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319000268 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657319000269 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 657319000270 ligand binding site [chemical binding]; other site 657319000271 dimerization interface [polypeptide binding]; other site 657319000272 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657319000273 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319000274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319000275 metal binding site [ion binding]; metal-binding site 657319000276 active site 657319000277 I-site; other site 657319000278 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 657319000279 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 657319000280 dimer interface [polypeptide binding]; other site 657319000281 conserved gate region; other site 657319000282 putative PBP binding loops; other site 657319000283 ABC-ATPase subunit interface; other site 657319000284 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 657319000285 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 657319000286 Walker A/P-loop; other site 657319000287 ATP binding site [chemical binding]; other site 657319000288 Q-loop/lid; other site 657319000289 ABC transporter signature motif; other site 657319000290 Walker B; other site 657319000291 D-loop; other site 657319000292 H-loop/switch region; other site 657319000293 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 657319000294 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657319000295 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 657319000296 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319000297 putative active site [active] 657319000298 putative metal binding site [ion binding]; other site 657319000299 Deoxycytidylate deaminase [Nucleotide transport and metabolism]; Region: ComEB; COG2131 657319000300 active site 657319000301 Zn binding site [ion binding]; other site 657319000302 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 657319000303 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657319000304 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 657319000305 PhoU domain; Region: PhoU; pfam01895 657319000306 PhoU domain; Region: PhoU; pfam01895 657319000307 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 657319000308 Response regulator receiver domain; Region: Response_reg; pfam00072 657319000309 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 657319000310 active site 657319000311 phosphorylation site [posttranslational modification] 657319000312 intermolecular recognition site; other site 657319000313 dimerization interface [polypeptide binding]; other site 657319000314 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 657319000315 putative active site [active] 657319000316 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 657319000317 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 657319000318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319000319 homodimer interface [polypeptide binding]; other site 657319000320 catalytic residue [active] 657319000321 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 657319000322 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 657319000323 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 657319000324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 657319000325 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 657319000326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 657319000327 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 657319000328 SPFH domain / Band 7 family; Region: Band_7; pfam01145 657319000329 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 657319000330 Part of AAA domain; Region: AAA_19; pfam13245 657319000331 Family description; Region: UvrD_C_2; pfam13538 657319000332 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 657319000333 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 657319000334 motif II; other site 657319000335 hydrolase; Region: PLN02811 657319000336 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 657319000337 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 657319000338 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 657319000339 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 657319000340 nucleotide binding site [chemical binding]; other site 657319000341 NEF interaction site [polypeptide binding]; other site 657319000342 SBD interface [polypeptide binding]; other site 657319000343 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 657319000344 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 657319000345 HSP70 interaction site [polypeptide binding]; other site 657319000346 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 657319000347 Zn binding sites [ion binding]; other site 657319000348 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 657319000349 dimer interface [polypeptide binding]; other site 657319000350 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 657319000351 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 657319000352 NodB motif; other site 657319000353 active site 657319000354 catalytic site [active] 657319000355 metal binding site [ion binding]; metal-binding site 657319000356 putative lipid kinase; Reviewed; Region: PRK13337 657319000357 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 657319000358 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 657319000359 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657319000360 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657319000361 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 657319000362 gamma-glutamyl kinase; Provisional; Region: PRK05429 657319000363 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 657319000364 nucleotide binding site [chemical binding]; other site 657319000365 homotetrameric interface [polypeptide binding]; other site 657319000366 putative phosphate binding site [ion binding]; other site 657319000367 putative allosteric binding site; other site 657319000368 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 657319000369 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 657319000370 putative catalytic cysteine [active] 657319000371 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 657319000372 Na binding site [ion binding]; other site 657319000373 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 657319000374 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657319000375 G1 box; other site 657319000376 GTP/Mg2+ binding site [chemical binding]; other site 657319000377 Switch I region; other site 657319000378 G2 box; other site 657319000379 G3 box; other site 657319000380 Switch II region; other site 657319000381 G4 box; other site 657319000382 G5 box; other site 657319000383 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657319000384 Nucleoside recognition; Region: Gate; pfam07670 657319000385 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657319000386 Nucleoside recognition; Region: Gate; pfam07670 657319000387 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 657319000388 Domain of unknown function (DUF377); Region: DUF377; pfam04041 657319000389 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657319000390 active site 657319000391 PBP superfamily domain; Region: PBP_like_2; cl17296 657319000392 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 657319000393 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 657319000394 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 657319000395 dimer interface [polypeptide binding]; other site 657319000396 conserved gate region; other site 657319000397 putative PBP binding loops; other site 657319000398 ABC-ATPase subunit interface; other site 657319000399 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 657319000400 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 657319000401 dimer interface [polypeptide binding]; other site 657319000402 conserved gate region; other site 657319000403 putative PBP binding loops; other site 657319000404 ABC-ATPase subunit interface; other site 657319000405 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 657319000406 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 657319000407 Walker A/P-loop; other site 657319000408 ATP binding site [chemical binding]; other site 657319000409 Q-loop/lid; other site 657319000410 ABC transporter signature motif; other site 657319000411 Walker B; other site 657319000412 D-loop; other site 657319000413 H-loop/switch region; other site 657319000414 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 657319000415 PhoU domain; Region: PhoU; pfam01895 657319000416 PhoU domain; Region: PhoU; pfam01895 657319000417 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 657319000418 PAS domain; Region: PAS; smart00091 657319000419 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 657319000420 dimer interface [polypeptide binding]; other site 657319000421 phosphorylation site [posttranslational modification] 657319000422 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 657319000423 ATP binding site [chemical binding]; other site 657319000424 Mg2+ binding site [ion binding]; other site 657319000425 G-X-G motif; other site 657319000426 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 657319000427 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 657319000428 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 657319000429 trimer interface [polypeptide binding]; other site 657319000430 active site 657319000431 substrate binding site [chemical binding]; other site 657319000432 CoA binding site [chemical binding]; other site 657319000433 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 657319000434 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657319000435 active site 657319000436 HIGH motif; other site 657319000437 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 657319000438 KMSKS motif; other site 657319000439 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 657319000440 tRNA binding surface [nucleotide binding]; other site 657319000441 anticodon binding site; other site 657319000442 Rhomboid family; Region: Rhomboid; cl11446 657319000443 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 657319000444 ammonium transporter; Region: amt; TIGR00836 657319000445 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 657319000446 Nitrogen regulatory protein P-II; Region: P-II; smart00938 657319000447 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 657319000448 Bacterial PH domain; Region: DUF304; pfam03703 657319000449 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657319000450 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 657319000451 motif II; other site 657319000452 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 657319000453 RimM N-terminal domain; Region: RimM; pfam01782 657319000454 PRC-barrel domain; Region: PRC; pfam05239 657319000455 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 657319000456 Domain of unknown function (DUF955); Region: DUF955; cl01076 657319000457 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 657319000458 AAA ATPase domain; Region: AAA_16; pfam13191 657319000459 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 657319000460 DNA polymerase III subunit delta'; Validated; Region: PRK08485 657319000461 Protein of unknown function (DUF970); Region: DUF970; cl17525 657319000462 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657319000463 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 657319000464 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657319000465 catalytic residue [active] 657319000466 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657319000467 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 657319000468 Cell division protein FtsA; Region: FtsA; smart00842 657319000469 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 657319000470 nucleotide binding site [chemical binding]; other site 657319000471 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 657319000472 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 657319000473 Radical SAM superfamily; Region: Radical_SAM; pfam04055 657319000474 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; cl15377 657319000475 FeS/SAM binding site; other site 657319000476 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 657319000477 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 657319000478 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657319000479 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319000480 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 657319000481 non-specific DNA binding site [nucleotide binding]; other site 657319000482 salt bridge; other site 657319000483 sequence-specific DNA binding site [nucleotide binding]; other site 657319000484 Terminase-like family; Region: Terminase_6; pfam03237 657319000485 Phage terminase large subunit; Region: Terminase_3; cl12054 657319000486 Protein of unknown function (DUF464); Region: DUF464; cl01080 657319000487 SpoVR like protein; Region: SpoVR; pfam04293 657319000488 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 657319000489 trimer interface [polypeptide binding]; other site 657319000490 Phage tail repeat like; Region: PTR; pfam12789 657319000491 Holin family; Region: Phage_holin_4; pfam05105 657319000492 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 657319000493 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 657319000494 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657319000495 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 657319000496 G5 domain; Region: G5; pfam07501 657319000497 Peptidase family M23; Region: Peptidase_M23; pfam01551 657319000498 Integral membrane protein DUF95; Region: DUF95; cl00572 657319000499 Propanediol utilisation protein PduL; Region: PduL; pfam06130 657319000500 Propanediol utilisation protein PduL; Region: PduL; pfam06130 657319000501 FtsX-like permease family; Region: FtsX; pfam02687 657319000502 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319000503 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319000504 Walker A/P-loop; other site 657319000505 ATP binding site [chemical binding]; other site 657319000506 Q-loop/lid; other site 657319000507 ABC transporter signature motif; other site 657319000508 Walker B; other site 657319000509 D-loop; other site 657319000510 H-loop/switch region; other site 657319000511 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319000512 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 657319000513 ATP binding site [chemical binding]; other site 657319000514 Mg2+ binding site [ion binding]; other site 657319000515 G-X-G motif; other site 657319000516 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657319000517 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 657319000518 active site 657319000519 phosphorylation site [posttranslational modification] 657319000520 intermolecular recognition site; other site 657319000521 dimerization interface [polypeptide binding]; other site 657319000522 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 657319000523 DNA binding site [nucleotide binding] 657319000524 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 657319000525 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 657319000526 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 657319000527 FAD binding site [chemical binding]; other site 657319000528 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 657319000529 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 657319000530 active site 657319000531 HIGH motif; other site 657319000532 KMSKS motif; other site 657319000533 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 657319000534 tRNA binding surface [nucleotide binding]; other site 657319000535 anticodon binding site; other site 657319000536 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 657319000537 dimer interface [polypeptide binding]; other site 657319000538 putative tRNA-binding site [nucleotide binding]; other site 657319000539 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 657319000540 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 657319000541 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 657319000542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319000543 Walker A/P-loop; other site 657319000544 ATP binding site [chemical binding]; other site 657319000545 Q-loop/lid; other site 657319000546 ABC transporter signature motif; other site 657319000547 Walker B; other site 657319000548 D-loop; other site 657319000549 H-loop/switch region; other site 657319000550 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 657319000551 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 657319000552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 657319000553 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657319000554 Peptidase family M23; Region: Peptidase_M23; pfam01551 657319000555 C-terminal peptidase (prc); Region: prc; TIGR00225 657319000556 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 657319000557 protein binding site [polypeptide binding]; other site 657319000558 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657319000559 Active site serine [active] 657319000560 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 657319000561 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 657319000562 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 657319000563 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 657319000564 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 657319000565 dimer interface [polypeptide binding]; other site 657319000566 putative anticodon binding site; other site 657319000567 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 657319000568 motif 1; other site 657319000569 active site 657319000570 motif 2; other site 657319000571 motif 3; other site 657319000572 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 657319000573 dimer interface [polypeptide binding]; other site 657319000574 putative tRNA-binding site [nucleotide binding]; other site 657319000575 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 657319000576 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 657319000577 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 657319000578 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 657319000579 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 657319000580 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657319000581 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 657319000582 P-loop; other site 657319000583 Magnesium ion binding site [ion binding]; other site 657319000584 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 657319000585 Magnesium ion binding site [ion binding]; other site 657319000586 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 657319000587 ParB-like nuclease domain; Region: ParBc; pfam02195 657319000588 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657319000589 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657319000590 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 657319000591 MutS domain I; Region: MutS_I; pfam01624 657319000592 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 657319000593 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 657319000594 S-adenosylmethionine binding site [chemical binding]; other site 657319000595 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319000596 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 657319000597 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 657319000598 ATP binding site [chemical binding]; other site 657319000599 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319000600 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657319000601 nucleotide binding region [chemical binding]; other site 657319000602 ATP-binding site [chemical binding]; other site 657319000603 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 657319000604 TAP-like protein; Region: Abhydrolase_4; pfam08386 657319000605 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319000606 Coenzyme A binding pocket [chemical binding]; other site 657319000607 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 657319000608 Protein of unknown function (DUF3848); Region: DUF3848; pfam12959 657319000609 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657319000610 Toprim-like; Region: Toprim_2; pfam13155 657319000611 YodL-like; Region: YodL; pfam14191 657319000612 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657319000613 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657319000614 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657319000615 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 657319000616 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 657319000617 Walker A motif; other site 657319000618 ATP binding site [chemical binding]; other site 657319000619 Walker B motif; other site 657319000620 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 657319000621 AAA domain; Region: AAA_25; pfam13481 657319000622 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 657319000623 ATP binding site [chemical binding]; other site 657319000624 Walker A motif; other site 657319000625 Walker B motif; other site 657319000626 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 657319000627 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 657319000628 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319000629 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657319000630 putative catalytic residues [active] 657319000631 catalytic nucleophile [active] 657319000632 Recombinase; Region: Recombinase; pfam07508 657319000633 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319000634 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657319000635 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657319000636 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319000637 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 657319000638 DNA binding residues [nucleotide binding] 657319000639 PrgI family protein; Region: PrgI; pfam12666 657319000640 AAA-like domain; Region: AAA_10; pfam12846 657319000641 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 657319000642 active site 657319000643 catalytic site [active] 657319000644 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 657319000645 TIGR02594 family protein; Region: TIGR02594 657319000646 Transcriptional regulator PadR-like family; Region: PadR; cl17335 657319000647 Predicted transcriptional regulators [Transcription]; Region: COG1695 657319000648 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 657319000649 non-specific DNA binding site [nucleotide binding]; other site 657319000650 salt bridge; other site 657319000651 sequence-specific DNA binding site [nucleotide binding]; other site 657319000652 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 657319000653 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 657319000654 non-specific DNA binding site [nucleotide binding]; other site 657319000655 salt bridge; other site 657319000656 sequence-specific DNA binding site [nucleotide binding]; other site 657319000657 Flavin Reductases; Region: FlaRed; cl00801 657319000658 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 657319000659 hydrophobic ligand binding site; other site 657319000660 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 657319000661 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 657319000662 A new structural DNA glycosylase; Region: AlkD_like; cl11434 657319000663 active site 657319000664 HEAT repeats; Region: HEAT_2; pfam13646 657319000665 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 657319000666 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_23; cd09011 657319000667 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657319000668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319000669 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657319000670 Coenzyme A binding pocket [chemical binding]; other site 657319000671 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 657319000672 Chloramphenicol acetyltransferase; Region: CAT; cl02008 657319000673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319000674 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 657319000675 dimer interface [polypeptide binding]; other site 657319000676 phosphorylation site [posttranslational modification] 657319000677 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 657319000678 ATP binding site [chemical binding]; other site 657319000679 Mg2+ binding site [ion binding]; other site 657319000680 G-X-G motif; other site 657319000681 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657319000682 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 657319000683 active site 657319000684 phosphorylation site [posttranslational modification] 657319000685 intermolecular recognition site; other site 657319000686 dimerization interface [polypeptide binding]; other site 657319000687 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 657319000688 DNA binding site [nucleotide binding] 657319000689 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657319000690 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 657319000691 Walker A/P-loop; other site 657319000692 ATP binding site [chemical binding]; other site 657319000693 Q-loop/lid; other site 657319000694 ABC transporter signature motif; other site 657319000695 Walker B; other site 657319000696 D-loop; other site 657319000697 H-loop/switch region; other site 657319000698 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657319000699 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657319000700 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 657319000701 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 657319000702 Domain of unknown function (DUF955); Region: DUF955; pfam06114 657319000703 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319000704 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 657319000705 non-specific DNA binding site [nucleotide binding]; other site 657319000706 salt bridge; other site 657319000707 sequence-specific DNA binding site [nucleotide binding]; other site 657319000708 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 657319000709 Ligand Binding Site [chemical binding]; other site 657319000710 PemK-like protein; Region: PemK; pfam02452 657319000711 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657319000712 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657319000713 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657319000714 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657319000715 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657319000716 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 657319000717 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657319000718 Int/Topo IB signature motif; other site 657319000719 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319000720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319000721 ABC transporter signature motif; other site 657319000722 Walker B; other site 657319000723 D-loop; other site 657319000724 H-loop/switch region; other site 657319000725 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319000726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319000727 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657319000728 DNA binding residues [nucleotide binding] 657319000729 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 657319000730 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657319000731 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319000732 Walker A/P-loop; other site 657319000733 ATP binding site [chemical binding]; other site 657319000734 Q-loop/lid; other site 657319000735 ABC transporter signature motif; other site 657319000736 Walker B; other site 657319000737 D-loop; other site 657319000738 H-loop/switch region; other site 657319000739 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 657319000740 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657319000741 active site 657319000742 DNA binding site [nucleotide binding] 657319000743 Int/Topo IB signature motif; other site 657319000744 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319000745 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; cl17257 657319000746 DNA binding residues [nucleotide binding] 657319000747 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319000748 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 657319000749 DNA binding residues [nucleotide binding] 657319000750 PemK-like protein; Region: PemK; pfam02452 657319000751 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657319000752 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657319000753 Excisionase from transposon Tn916; Region: Tn916-Xis; pfam09035 657319000754 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 657319000755 putative tRNA-binding site [nucleotide binding]; other site 657319000756 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319000757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319000758 metal binding site [ion binding]; metal-binding site 657319000759 active site 657319000760 Domain of unknown function, E. rectale Gene description (DUF3879); Region: DUF3879; pfam12995 657319000761 Predicted transcriptional regulator [Transcription]; Region: COG2378 657319000762 HTH domain; Region: HTH_11; pfam08279 657319000763 WYL domain; Region: WYL; pfam13280 657319000764 Uncharacterized conserved protein [Function unknown]; Region: COG1479 657319000765 Protein of unknown function DUF262; Region: DUF262; pfam03235 657319000766 Protein of unknown function DUF262; Region: DUF262; pfam03235 657319000767 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319000768 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657319000769 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319000770 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 657319000771 nucleotide binding region [chemical binding]; other site 657319000772 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657319000773 ATP-binding site [chemical binding]; other site 657319000774 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 657319000775 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657319000776 Walker A motif; other site 657319000777 ATP binding site [chemical binding]; other site 657319000778 Walker B motif; other site 657319000779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 657319000780 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 657319000781 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 657319000782 metal ion-dependent adhesion site (MIDAS); other site 657319000783 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 657319000784 oligomer interface [polypeptide binding]; other site 657319000785 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319000786 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 657319000787 active site 657319000788 metal binding site [ion binding]; metal-binding site 657319000789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319000790 Coenzyme A binding pocket [chemical binding]; other site 657319000791 Probable beta-xylosidase; Provisional; Region: PLN03080 657319000792 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657319000793 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657319000794 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 657319000795 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657319000796 substrate binding site [chemical binding]; other site 657319000797 ATP binding site [chemical binding]; other site 657319000798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2739; cl17893 657319000799 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 657319000800 signal recognition particle protein; Provisional; Region: PRK10867 657319000801 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 657319000802 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 657319000803 P loop; other site 657319000804 GTP binding site [chemical binding]; other site 657319000805 Signal peptide binding domain; Region: SRP_SPB; pfam02978 657319000806 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 657319000807 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 657319000808 KH domain; Region: KH_4; pfam13083 657319000809 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657319000810 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 657319000811 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319000812 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 657319000813 non-specific DNA binding site [nucleotide binding]; other site 657319000814 salt bridge; other site 657319000815 sequence-specific DNA binding site [nucleotide binding]; other site 657319000816 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 657319000817 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 657319000818 active site 657319000819 dimer interface [polypeptide binding]; other site 657319000820 metal binding site [ion binding]; metal-binding site 657319000821 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 657319000822 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 657319000823 FeS/SAM binding site; other site 657319000824 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 657319000825 G1 box; other site 657319000826 GTP/Mg2+ binding site [chemical binding]; other site 657319000827 Switch I region; other site 657319000828 G2 box; other site 657319000829 G3 box; other site 657319000830 Switch II region; other site 657319000831 G4 box; other site 657319000832 G5 box; other site 657319000833 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 657319000834 Found in ATP-dependent protease La (LON); Region: LON; smart00464 657319000835 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 657319000836 Walker A motif; other site 657319000837 ATP binding site [chemical binding]; other site 657319000838 Walker B motif; other site 657319000839 arginine finger; other site 657319000840 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 657319000841 ketol-acid reductoisomerase; Provisional; Region: PRK05479 657319000842 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 657319000843 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 657319000844 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 657319000845 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 657319000846 putative valine binding site [chemical binding]; other site 657319000847 dimer interface [polypeptide binding]; other site 657319000848 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 657319000849 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 657319000850 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 657319000851 PYR/PP interface [polypeptide binding]; other site 657319000852 dimer interface [polypeptide binding]; other site 657319000853 TPP binding site [chemical binding]; other site 657319000854 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 657319000855 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 657319000856 TPP-binding site [chemical binding]; other site 657319000857 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657319000858 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657319000859 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 657319000860 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 657319000861 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 657319000862 SLBB domain; Region: SLBB; pfam10531 657319000863 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 657319000864 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 657319000865 FMN-binding domain; Region: FMN_bind; pfam04205 657319000866 electron transport complex RsxE subunit; Provisional; Region: PRK12405 657319000867 electron transport complex, RnfABCDGE type, A subunit; Region: rnfA; TIGR01943 657319000868 ferredoxin; Validated; Region: PRK07118 657319000869 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 657319000870 4Fe-4S binding domain; Region: Fer4; cl02805 657319000871 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319000872 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319000873 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319000874 metal binding site [ion binding]; metal-binding site 657319000875 active site 657319000876 I-site; other site 657319000877 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319000878 hybrid cluster protein; Provisional; Region: PRK05290 657319000879 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 657319000880 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 657319000881 ACS interaction site; other site 657319000882 CODH interaction site; other site 657319000883 metal cluster binding site [ion binding]; other site 657319000884 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 657319000885 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 657319000886 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657319000887 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 657319000888 active site 657319000889 phosphorylation site [posttranslational modification] 657319000890 intermolecular recognition site; other site 657319000891 dimerization interface [polypeptide binding]; other site 657319000892 LytTr DNA-binding domain; Region: LytTR; pfam04397 657319000893 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 657319000894 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 657319000895 HAMP domain; Region: HAMP; pfam00672 657319000896 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657319000897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657319000898 dimer interface [polypeptide binding]; other site 657319000899 putative CheW interface [polypeptide binding]; other site 657319000900 QueT transporter; Region: QueT; pfam06177 657319000901 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657319000902 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657319000903 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657319000904 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 657319000905 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657319000906 MarR family; Region: MarR_2; cl17246 657319000907 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657319000908 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 657319000909 elongation factor G; Reviewed; Region: PRK12740 657319000910 G1 box; other site 657319000911 putative GEF interaction site [polypeptide binding]; other site 657319000912 GTP/Mg2+ binding site [chemical binding]; other site 657319000913 Switch I region; other site 657319000914 G2 box; other site 657319000915 G3 box; other site 657319000916 Switch II region; other site 657319000917 G4 box; other site 657319000918 G5 box; other site 657319000919 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 657319000920 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 657319000921 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cd01514 657319000922 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657319000923 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657319000924 Walker A/P-loop; other site 657319000925 ATP binding site [chemical binding]; other site 657319000926 Q-loop/lid; other site 657319000927 ABC transporter signature motif; other site 657319000928 Walker B; other site 657319000929 D-loop; other site 657319000930 H-loop/switch region; other site 657319000931 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657319000932 Sensory domain found in PocR; Region: PocR; pfam10114 657319000933 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 657319000934 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657319000935 dimer interface [polypeptide binding]; other site 657319000936 putative CheW interface [polypeptide binding]; other site 657319000937 glycogen synthase; Provisional; Region: glgA; PRK00654 657319000938 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 657319000939 ADP-binding pocket [chemical binding]; other site 657319000940 homodimer interface [polypeptide binding]; other site 657319000941 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 657319000942 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657319000943 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 657319000944 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657319000945 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 657319000946 Predicted membrane protein [Function unknown]; Region: COG2323 657319000947 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 657319000948 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 657319000949 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 657319000950 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 657319000951 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 657319000952 dimer interface [polypeptide binding]; other site 657319000953 conserved gate region; other site 657319000954 ABC-ATPase subunit interface; other site 657319000955 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 657319000956 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 657319000957 Walker A/P-loop; other site 657319000958 ATP binding site [chemical binding]; other site 657319000959 Q-loop/lid; other site 657319000960 ABC transporter signature motif; other site 657319000961 Walker B; other site 657319000962 D-loop; other site 657319000963 H-loop/switch region; other site 657319000964 NIL domain; Region: NIL; pfam09383 657319000965 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657319000966 active site 657319000967 catalytic triad [active] 657319000968 oxyanion hole [active] 657319000969 HipA N-terminal domain; Region: couple_hipA; TIGR03071 657319000970 HipA-like N-terminal domain; Region: HipA_N; pfam07805 657319000971 HipA-like C-terminal domain; Region: HipA_C; pfam07804 657319000972 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319000973 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319000974 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 657319000975 non-specific DNA binding site [nucleotide binding]; other site 657319000976 salt bridge; other site 657319000977 sequence-specific DNA binding site [nucleotide binding]; other site 657319000978 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 657319000979 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657319000980 substrate binding pocket [chemical binding]; other site 657319000981 membrane-bound complex binding site; other site 657319000982 hinge residues; other site 657319000983 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 657319000984 metal-binding site [ion binding] 657319000985 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657319000986 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 657319000987 metal-binding site [ion binding] 657319000988 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657319000989 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 657319000990 motif II; other site 657319000991 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 657319000992 metal-binding site [ion binding] 657319000993 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 657319000994 putative homodimer interface [polypeptide binding]; other site 657319000995 putative homotetramer interface [polypeptide binding]; other site 657319000996 putative allosteric switch controlling residues; other site 657319000997 putative metal binding site [ion binding]; other site 657319000998 putative homodimer-homodimer interface [polypeptide binding]; other site 657319000999 4-alpha-glucanotransferase; Provisional; Region: PRK14508 657319001000 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 657319001001 homodimer interface [polypeptide binding]; other site 657319001002 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657319001003 active site pocket [active] 657319001004 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 657319001005 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657319001006 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 657319001007 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 657319001008 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 657319001009 dimer interface [polypeptide binding]; other site 657319001010 conserved gate region; other site 657319001011 putative PBP binding loops; other site 657319001012 ABC-ATPase subunit interface; other site 657319001013 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657319001014 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 657319001015 dimer interface [polypeptide binding]; other site 657319001016 conserved gate region; other site 657319001017 putative PBP binding loops; other site 657319001018 ABC-ATPase subunit interface; other site 657319001019 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657319001020 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657319001021 DNA binding site [nucleotide binding] 657319001022 domain linker motif; other site 657319001023 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 657319001024 ligand binding site [chemical binding]; other site 657319001025 dimerization interface [polypeptide binding]; other site 657319001026 Alpha amylase catalytic domain found in bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac2_AmyA; cd11316 657319001027 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657319001028 Ca binding site [ion binding]; other site 657319001029 active site 657319001030 catalytic site [active] 657319001031 pullulanase, type I; Region: pulA_typeI; TIGR02104 657319001032 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 657319001033 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 657319001034 Ca binding site [ion binding]; other site 657319001035 active site 657319001036 catalytic site [active] 657319001037 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 657319001038 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657319001039 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657319001040 active site 657319001041 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 657319001042 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 657319001043 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657319001044 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 657319001045 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 657319001046 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657319001047 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657319001048 FtsX-like permease family; Region: FtsX; pfam02687 657319001049 FtsX-like permease family; Region: FtsX; pfam02687 657319001050 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319001051 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319001052 Q-loop/lid; other site 657319001053 ABC transporter signature motif; other site 657319001054 Walker B; other site 657319001055 D-loop; other site 657319001056 H-loop/switch region; other site 657319001057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001058 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 657319001059 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 657319001060 active site 657319001061 metal binding site [ion binding]; metal-binding site 657319001062 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 657319001063 Protein of unknown function DUF45; Region: DUF45; pfam01863 657319001064 EDD domain protein, DegV family; Region: DegV; TIGR00762 657319001065 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657319001066 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 657319001067 active site 657319001068 catalytic triad [active] 657319001069 oxyanion hole [active] 657319001070 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657319001071 active site 657319001072 catalytic triad [active] 657319001073 oxyanion hole [active] 657319001074 glycogen branching enzyme; Provisional; Region: PRK12313 657319001075 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 657319001076 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 657319001077 active site 657319001078 catalytic site [active] 657319001079 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 657319001080 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 657319001081 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657319001082 ligand binding site; other site 657319001083 oligomer interface; other site 657319001084 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657319001085 dimer interface [polypeptide binding]; other site 657319001086 N-terminal domain interface [polypeptide binding]; other site 657319001087 sulfate 1 binding site; other site 657319001088 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 657319001089 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 657319001090 ligand binding site; other site 657319001091 oligomer interface; other site 657319001092 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 657319001093 dimer interface [polypeptide binding]; other site 657319001094 N-terminal domain interface [polypeptide binding]; other site 657319001095 sulfate 1 binding site; other site 657319001096 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 657319001097 2-ketoisovalerate ferredoxin oxidoreductase subunit delta; Reviewed; Region: vorD; PRK09623 657319001098 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 657319001099 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657319001100 dimer interface [polypeptide binding]; other site 657319001101 PYR/PP interface [polypeptide binding]; other site 657319001102 TPP binding site [chemical binding]; other site 657319001103 substrate binding site [chemical binding]; other site 657319001104 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657319001105 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 657319001106 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 657319001107 TPP-binding site [chemical binding]; other site 657319001108 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 657319001109 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 657319001110 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 657319001111 Clp amino terminal domain; Region: Clp_N; pfam02861 657319001112 Clp amino terminal domain; Region: Clp_N; pfam02861 657319001113 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 657319001114 Walker A motif; other site 657319001115 ATP binding site [chemical binding]; other site 657319001116 Walker B motif; other site 657319001117 arginine finger; other site 657319001118 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 657319001119 Walker A motif; other site 657319001120 ATP binding site [chemical binding]; other site 657319001121 Walker B motif; other site 657319001122 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 657319001123 hypothetical protein; Provisional; Region: PRK11820 657319001124 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 657319001125 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 657319001126 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 657319001127 Aluminium resistance protein; Region: Alum_res; pfam06838 657319001128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319001129 Coenzyme A binding pocket [chemical binding]; other site 657319001130 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 657319001131 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 657319001132 oligomer interface [polypeptide binding]; other site 657319001133 active site 657319001134 metal binding site [ion binding]; metal-binding site 657319001135 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 657319001136 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 657319001137 oligomer interface [polypeptide binding]; other site 657319001138 active site 657319001139 metal binding site [ion binding]; metal-binding site 657319001140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 657319001141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657319001142 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 657319001143 dimerization interface [polypeptide binding]; other site 657319001144 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 657319001145 4Fe-4S binding domain; Region: Fer4; pfam00037 657319001146 4Fe-4S binding domain; Region: Fer4; pfam00037 657319001147 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657319001148 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 657319001149 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 657319001150 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657319001151 Putative Fe-S cluster; Region: FeS; cl17515 657319001152 PAS fold; Region: PAS; pfam00989 657319001153 PAS domain; Region: PAS; smart00091 657319001154 Predicted thioesterase [General function prediction only]; Region: COG5496 657319001155 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 657319001156 dimer interface [polypeptide binding]; other site 657319001157 [2Fe-2S] cluster binding site [ion binding]; other site 657319001158 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657319001159 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657319001160 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319001161 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319001162 Walker A/P-loop; other site 657319001163 ATP binding site [chemical binding]; other site 657319001164 Q-loop/lid; other site 657319001165 ABC transporter signature motif; other site 657319001166 Walker B; other site 657319001167 D-loop; other site 657319001168 H-loop/switch region; other site 657319001169 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 657319001170 FtsX-like permease family; Region: FtsX; pfam02687 657319001171 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 657319001172 FtsX-like permease family; Region: FtsX; pfam02687 657319001173 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 657319001174 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657319001175 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657319001176 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 657319001177 AzlC protein; Region: AzlC; cl00570 657319001178 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657319001179 active site 657319001180 catalytic triad [active] 657319001181 oxyanion hole [active] 657319001182 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 657319001183 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 657319001184 substrate binding pocket [chemical binding]; other site 657319001185 membrane-bound complex binding site; other site 657319001186 hinge residues; other site 657319001187 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 657319001188 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 657319001189 Walker A/P-loop; other site 657319001190 ATP binding site [chemical binding]; other site 657319001191 Q-loop/lid; other site 657319001192 ABC transporter signature motif; other site 657319001193 Walker B; other site 657319001194 D-loop; other site 657319001195 H-loop/switch region; other site 657319001196 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 657319001197 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 657319001198 dimer interface [polypeptide binding]; other site 657319001199 conserved gate region; other site 657319001200 putative PBP binding loops; other site 657319001201 ABC-ATPase subunit interface; other site 657319001202 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 657319001203 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 657319001204 homotetramer interface [polypeptide binding]; other site 657319001205 ligand binding site [chemical binding]; other site 657319001206 catalytic site [active] 657319001207 NAD binding site [chemical binding]; other site 657319001208 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 657319001209 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 657319001210 active site 657319001211 putative substrate binding pocket [chemical binding]; other site 657319001212 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319001213 Coenzyme A binding pocket [chemical binding]; other site 657319001214 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319001215 Coenzyme A binding pocket [chemical binding]; other site 657319001216 PIN domain; Region: PIN_3; pfam13470 657319001217 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 657319001218 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 657319001219 active site 657319001220 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657319001221 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657319001222 Protein of unknown function (DUF964); Region: DUF964; pfam06133 657319001223 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 657319001224 MutS domain I; Region: MutS_I; pfam01624 657319001225 MutS domain II; Region: MutS_II; pfam05188 657319001226 MutS domain III; Region: MutS_III; pfam05192 657319001227 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 657319001228 Walker A/P-loop; other site 657319001229 ATP binding site [chemical binding]; other site 657319001230 Q-loop/lid; other site 657319001231 ABC transporter signature motif; other site 657319001232 Walker B; other site 657319001233 D-loop; other site 657319001234 H-loop/switch region; other site 657319001235 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 657319001236 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 657319001237 ATP binding site [chemical binding]; other site 657319001238 Mg2+ binding site [ion binding]; other site 657319001239 G-X-G motif; other site 657319001240 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 657319001241 ATP binding site [chemical binding]; other site 657319001242 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 657319001243 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 657319001244 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 657319001245 HlyD family secretion protein; Region: HlyD_2; pfam12700 657319001246 putative membrane fusion protein; Region: TIGR02828 657319001247 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 657319001248 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657319001249 catalytic residue [active] 657319001250 Protein of unknown function (DUF552); Region: DUF552; pfam04472 657319001251 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 657319001252 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 657319001253 RNA binding surface [nucleotide binding]; other site 657319001254 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 657319001255 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 657319001256 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 657319001257 RNA binding surface [nucleotide binding]; other site 657319001258 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 657319001259 active site 657319001260 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 657319001261 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 657319001262 active site 657319001263 motif I; other site 657319001264 motif II; other site 657319001265 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657319001266 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319001267 Interdomain contacts; other site 657319001268 Cytokine receptor motif; other site 657319001269 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319001270 Interdomain contacts; other site 657319001271 Cytokine receptor motif; other site 657319001272 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 657319001273 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 657319001274 23S rRNA binding site [nucleotide binding]; other site 657319001275 L21 binding site [polypeptide binding]; other site 657319001276 L13 binding site [polypeptide binding]; other site 657319001277 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657319001278 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 657319001279 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657319001280 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 657319001281 Glucose inhibited division protein A; Region: GIDA; pfam01134 657319001282 putative phosphate acyltransferase; Provisional; Region: PRK05331 657319001283 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 657319001284 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 657319001285 dimerization interface [polypeptide binding]; other site 657319001286 active site 657319001287 metal binding site [ion binding]; metal-binding site 657319001288 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 657319001289 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 657319001290 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 657319001291 FeS/SAM binding site; other site 657319001292 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 657319001293 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 657319001294 Walker A/P-loop; other site 657319001295 ATP binding site [chemical binding]; other site 657319001296 Q-loop/lid; other site 657319001297 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 657319001298 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 657319001299 Q-loop/lid; other site 657319001300 ABC transporter signature motif; other site 657319001301 Walker B; other site 657319001302 D-loop; other site 657319001303 H-loop/switch region; other site 657319001304 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 657319001305 Active site serine [active] 657319001306 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 657319001307 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 657319001308 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 657319001309 P loop; other site 657319001310 GTP binding site [chemical binding]; other site 657319001311 Predicted membrane protein [Function unknown]; Region: COG3326 657319001312 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 657319001313 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 657319001314 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 657319001315 active site 657319001316 (T/H)XGH motif; other site 657319001317 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657319001318 Zn2+ binding site [ion binding]; other site 657319001319 Mg2+ binding site [ion binding]; other site 657319001320 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 657319001321 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 657319001322 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 657319001323 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 657319001324 active site 657319001325 motif I; other site 657319001326 motif II; other site 657319001327 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 657319001328 AP (apurinic/apyrimidinic) site pocket; other site 657319001329 AP endonuclease family 2; Region: AP2Ec; smart00518 657319001330 DNA interaction; other site 657319001331 Metal-binding active site; metal-binding site 657319001332 Dehydroquinase class II; Region: DHquinase_II; pfam01220 657319001333 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 657319001334 trimer interface [polypeptide binding]; other site 657319001335 active site 657319001336 dimer interface [polypeptide binding]; other site 657319001337 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 657319001338 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 657319001339 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 657319001340 active site 657319001341 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 657319001342 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 657319001343 ArsC family; Region: ArsC; pfam03960 657319001344 catalytic residue [active] 657319001345 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657319001346 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319001347 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 657319001348 DNA binding residues [nucleotide binding] 657319001349 Putative zinc-finger; Region: zf-HC2; pfam13490 657319001350 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 657319001351 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 657319001352 substrate binding pocket [chemical binding]; other site 657319001353 membrane-bound complex binding site; other site 657319001354 hinge residues; other site 657319001355 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 657319001356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001357 Walker A/P-loop; other site 657319001358 ATP binding site [chemical binding]; other site 657319001359 Q-loop/lid; other site 657319001360 ABC transporter signature motif; other site 657319001361 Walker B; other site 657319001362 D-loop; other site 657319001363 H-loop/switch region; other site 657319001364 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 657319001365 Interdomain contacts; other site 657319001366 Fibronectin type 3 domain; Region: FN3; smart00060 657319001367 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319001368 Interdomain contacts; other site 657319001369 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 657319001370 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 657319001371 folate binding site [chemical binding]; other site 657319001372 NADP+ binding site [chemical binding]; other site 657319001373 MraW methylase family; Region: Methyltransf_5; pfam01795 657319001374 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 657319001375 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 657319001376 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 657319001377 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 657319001378 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 657319001379 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 657319001380 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 657319001381 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 657319001382 Mg++ binding site [ion binding]; other site 657319001383 putative catalytic motif [active] 657319001384 putative substrate binding site [chemical binding]; other site 657319001385 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 657319001386 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 657319001387 active site 657319001388 homodimer interface [polypeptide binding]; other site 657319001389 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 657319001390 cell division protein FtsZ; Region: ftsZ; TIGR00065 657319001391 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 657319001392 nucleotide binding site [chemical binding]; other site 657319001393 SulA interaction site; other site 657319001394 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319001395 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319001396 Walker A/P-loop; other site 657319001397 ATP binding site [chemical binding]; other site 657319001398 Q-loop/lid; other site 657319001399 ABC transporter signature motif; other site 657319001400 Walker B; other site 657319001401 D-loop; other site 657319001402 H-loop/switch region; other site 657319001403 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657319001404 FtsX-like permease family; Region: FtsX; pfam02687 657319001405 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319001406 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 657319001407 dimerization interface [polypeptide binding]; other site 657319001408 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 657319001409 dimer interface [polypeptide binding]; other site 657319001410 phosphorylation site [posttranslational modification] 657319001411 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 657319001412 ATP binding site [chemical binding]; other site 657319001413 Mg2+ binding site [ion binding]; other site 657319001414 G-X-G motif; other site 657319001415 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657319001416 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 657319001417 active site 657319001418 phosphorylation site [posttranslational modification] 657319001419 intermolecular recognition site; other site 657319001420 dimerization interface [polypeptide binding]; other site 657319001421 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 657319001422 DNA binding site [nucleotide binding] 657319001423 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 657319001424 AAA domain; Region: AAA_23; pfam13476 657319001425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001426 AAA domain; Region: AAA_21; pfam13304 657319001427 Walker A/P-loop; other site 657319001428 ATP binding site [chemical binding]; other site 657319001429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001430 Walker B; other site 657319001431 D-loop; other site 657319001432 H-loop/switch region; other site 657319001433 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 657319001434 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 657319001435 HNH endonuclease; Region: HNH_2; pfam13391 657319001436 GMP synthase; Reviewed; Region: guaA; PRK00074 657319001437 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 657319001438 AMP/PPi binding site [chemical binding]; other site 657319001439 candidate oxyanion hole; other site 657319001440 catalytic triad [active] 657319001441 potential glutamine specificity residues [chemical binding]; other site 657319001442 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 657319001443 ATP Binding subdomain [chemical binding]; other site 657319001444 Ligand Binding sites [chemical binding]; other site 657319001445 Dimerization subdomain; other site 657319001446 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 657319001447 catalytic residues [active] 657319001448 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 657319001449 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 657319001450 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 657319001451 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 657319001452 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 657319001453 Walker B motif; other site 657319001454 arginine finger; other site 657319001455 Peptidase family M41; Region: Peptidase_M41; pfam01434 657319001456 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 657319001457 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 657319001458 Ligand Binding Site [chemical binding]; other site 657319001459 replicative DNA helicase; Region: DnaB; TIGR00665 657319001460 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657319001461 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 657319001462 Walker A motif; other site 657319001463 ATP binding site [chemical binding]; other site 657319001464 Walker B motif; other site 657319001465 DNA binding loops [nucleotide binding] 657319001466 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 657319001467 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 657319001468 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 657319001469 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 657319001470 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 657319001471 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 657319001472 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 657319001473 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 657319001474 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657319001475 catalytic residue [active] 657319001476 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 657319001477 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 657319001478 TPP-binding site; other site 657319001479 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 657319001480 PYR/PP interface [polypeptide binding]; other site 657319001481 dimer interface [polypeptide binding]; other site 657319001482 TPP binding site [chemical binding]; other site 657319001483 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657319001484 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 657319001485 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657319001486 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657319001487 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657319001488 glutamate dehydrogenase; Provisional; Region: PRK09414 657319001489 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 657319001490 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 657319001491 NAD(P) binding site [chemical binding]; other site 657319001492 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 657319001493 SmpB-tmRNA interface; other site 657319001494 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 657319001495 dinuclear metal binding motif [ion binding]; other site 657319001496 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319001497 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657319001498 catalytic residues [active] 657319001499 catalytic nucleophile [active] 657319001500 Recombinase; Region: Recombinase; pfam07508 657319001501 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319001502 comF family protein; Region: comF; TIGR00201 657319001503 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657319001504 active site 657319001505 Tubby C 2; Region: Tub_2; cl02043 657319001506 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 657319001507 pyridoxal binding site [chemical binding]; other site 657319001508 dimer interface [polypeptide binding]; other site 657319001509 ATP binding site [chemical binding]; other site 657319001510 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319001511 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657319001512 putative catalytic residues [active] 657319001513 catalytic nucleophile [active] 657319001514 Recombinase; Region: Recombinase; pfam07508 657319001515 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319001516 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657319001517 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 657319001518 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 657319001519 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 657319001520 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 657319001521 cofactor binding site; other site 657319001522 DNA binding site [nucleotide binding] 657319001523 substrate interaction site [chemical binding]; other site 657319001524 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 657319001525 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 657319001526 cofactor binding site; other site 657319001527 DNA binding site [nucleotide binding] 657319001528 substrate interaction site [chemical binding]; other site 657319001529 HpaII restriction endonuclease; Region: RE_HpaII; pfam09561 657319001530 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 657319001531 additional DNA contacts [nucleotide binding]; other site 657319001532 mismatch recognition site; other site 657319001533 active site 657319001534 zinc binding site [ion binding]; other site 657319001535 DNA intercalation site [nucleotide binding]; other site 657319001536 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 657319001537 active site 657319001538 DNA binding domain, excisionase family; Region: excise; TIGR01764 657319001539 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657319001540 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657319001541 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657319001542 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657319001543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319001544 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319001545 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 657319001546 Major Facilitator Superfamily; Region: MFS_1; pfam07690 657319001547 putative substrate translocation pore; other site 657319001548 Cupin domain; Region: Cupin_2; pfam07883 657319001549 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657319001550 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319001551 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 657319001552 salt bridge; other site 657319001553 non-specific DNA binding site [nucleotide binding]; other site 657319001554 sequence-specific DNA binding site [nucleotide binding]; other site 657319001555 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 657319001556 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 657319001557 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 657319001558 FeS/SAM binding site; other site 657319001559 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657319001560 metal binding site 2 [ion binding]; metal-binding site 657319001561 putative DNA binding helix; other site 657319001562 metal binding site 1 [ion binding]; metal-binding site 657319001563 dimer interface [polypeptide binding]; other site 657319001564 structural Zn2+ binding site [ion binding]; other site 657319001565 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 657319001566 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 657319001567 toxin interface [polypeptide binding]; other site 657319001568 Zn binding site [ion binding]; other site 657319001569 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 657319001570 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 657319001571 FeS/SAM binding site; other site 657319001572 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 657319001573 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 657319001574 peptide binding site [polypeptide binding]; other site 657319001575 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 657319001576 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 657319001577 active site 657319001578 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319001579 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319001580 Interdomain contacts; other site 657319001581 Cytokine receptor motif; other site 657319001582 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319001583 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319001584 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319001585 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319001586 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 657319001587 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 657319001588 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 657319001589 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 657319001590 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 657319001591 CopC domain; Region: CopC; cl01012 657319001592 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 657319001593 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 657319001594 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 657319001595 dimerization interface [polypeptide binding]; other site 657319001596 ATP binding site [chemical binding]; other site 657319001597 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 657319001598 dimerization interface [polypeptide binding]; other site 657319001599 ATP binding site [chemical binding]; other site 657319001600 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 657319001601 putative active site [active] 657319001602 catalytic triad [active] 657319001603 PTS HPr component phosphorylation site; Region: PTS-HPr; pfam00381 657319001604 regulatory protein interface [polypeptide binding]; other site 657319001605 regulatory phosphorylation site [posttranslational modification]; other site 657319001606 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 657319001607 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; cd00398 657319001608 intersubunit interface [polypeptide binding]; other site 657319001609 active site 657319001610 Zn2+ binding site [ion binding]; other site 657319001611 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 657319001612 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 657319001613 Domain of unknown function DUF21; Region: DUF21; pfam01595 657319001614 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 657319001615 Transporter associated domain; Region: CorC_HlyC; smart01091 657319001616 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 657319001617 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 657319001618 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 657319001619 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 657319001620 active site 657319001621 HIGH motif; other site 657319001622 KMSK motif region; other site 657319001623 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 657319001624 tRNA binding surface [nucleotide binding]; other site 657319001625 anticodon binding site; other site 657319001626 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 657319001627 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 657319001628 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657319001629 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 657319001630 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 657319001631 dimer interface [polypeptide binding]; other site 657319001632 ADP-ribose binding site [chemical binding]; other site 657319001633 active site 657319001634 nudix motif; other site 657319001635 metal binding site [ion binding]; metal-binding site 657319001636 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 657319001637 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 657319001638 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657319001639 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657319001640 Nuclease-related domain; Region: NERD; pfam08378 657319001641 HRDC domain; Region: HRDC; pfam00570 657319001642 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 657319001643 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 657319001644 active site 657319001645 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 657319001646 Quinolinate synthetase A protein; Region: NadA; pfam02445 657319001647 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 657319001648 putative binding surface; other site 657319001649 active site 657319001650 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657319001651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319001652 Coenzyme A binding pocket [chemical binding]; other site 657319001653 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 657319001654 dimerization interface [polypeptide binding]; other site 657319001655 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 657319001656 PAS fold; Region: PAS_3; pfam08447 657319001657 heme pocket [chemical binding]; other site 657319001658 putative active site [active] 657319001659 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319001660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319001661 metal binding site [ion binding]; metal-binding site 657319001662 active site 657319001663 I-site; other site 657319001664 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657319001665 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 657319001666 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 657319001667 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 657319001668 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 657319001669 dimerization interface [polypeptide binding]; other site 657319001670 putative Zn2+ binding site [ion binding]; other site 657319001671 putative DNA binding site [nucleotide binding]; other site 657319001672 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 657319001673 Cache domain; Region: Cache_1; pfam02743 657319001674 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657319001675 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657319001676 dimer interface [polypeptide binding]; other site 657319001677 putative CheW interface [polypeptide binding]; other site 657319001678 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 657319001679 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 657319001680 Cl- selectivity filter; other site 657319001681 Cl- binding residues [ion binding]; other site 657319001682 pore gating glutamate residue; other site 657319001683 dimer interface [polypeptide binding]; other site 657319001684 Biotin operon repressor [Transcription]; Region: BirA; COG1654 657319001685 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 657319001686 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 657319001687 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 657319001688 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 657319001689 elongation factor P; Validated; Region: PRK00529 657319001690 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 657319001691 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 657319001692 RNA binding site [nucleotide binding]; other site 657319001693 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 657319001694 RNA binding site [nucleotide binding]; other site 657319001695 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 657319001696 active site 657319001697 catalytic residues [active] 657319001698 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 657319001699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319001700 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657319001701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319001702 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657319001703 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 657319001704 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657319001705 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 657319001706 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319001707 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319001708 Walker A/P-loop; other site 657319001709 ATP binding site [chemical binding]; other site 657319001710 Q-loop/lid; other site 657319001711 ABC transporter signature motif; other site 657319001712 Walker B; other site 657319001713 D-loop; other site 657319001714 H-loop/switch region; other site 657319001715 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 657319001716 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 657319001717 active site 657319001718 dimer interface [polypeptide binding]; other site 657319001719 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 657319001720 dimer interface [polypeptide binding]; other site 657319001721 active site 657319001722 GTP-binding protein Der; Reviewed; Region: PRK00093 657319001723 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 657319001724 G1 box; other site 657319001725 GTP/Mg2+ binding site [chemical binding]; other site 657319001726 Switch I region; other site 657319001727 G2 box; other site 657319001728 Switch II region; other site 657319001729 G3 box; other site 657319001730 G4 box; other site 657319001731 G5 box; other site 657319001732 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 657319001733 G1 box; other site 657319001734 GTP/Mg2+ binding site [chemical binding]; other site 657319001735 Switch I region; other site 657319001736 G2 box; other site 657319001737 G3 box; other site 657319001738 Switch II region; other site 657319001739 G4 box; other site 657319001740 G5 box; other site 657319001741 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 657319001742 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 657319001743 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 657319001744 Na binding site [ion binding]; other site 657319001745 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 657319001746 stage V sporulation protein AD; Provisional; Region: PRK12404 657319001747 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 657319001748 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 657319001749 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 657319001750 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319001751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319001752 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; cl17257 657319001753 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 657319001754 active site 657319001755 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657319001756 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319001757 homoserine dehydrogenase; Provisional; Region: PRK06349 657319001758 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 657319001759 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 657319001760 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 657319001761 putative nucleotide binding site [chemical binding]; other site 657319001762 uridine monophosphate binding site [chemical binding]; other site 657319001763 homohexameric interface [polypeptide binding]; other site 657319001764 ribosome recycling factor; Reviewed; Region: frr; PRK00083 657319001765 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 657319001766 hinge region; other site 657319001767 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; cl00230 657319001768 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 657319001769 catalytic residue [active] 657319001770 putative FPP diphosphate binding site; other site 657319001771 putative FPP binding hydrophobic cleft; other site 657319001772 dimer interface [polypeptide binding]; other site 657319001773 putative IPP diphosphate binding site; other site 657319001774 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 657319001775 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 657319001776 GcpE protein; Region: GcpE; pfam04551 657319001777 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657319001778 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 657319001779 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 657319001780 generic binding surface II; other site 657319001781 generic binding surface I; other site 657319001782 DNA polymerase III, alpha chain, Gram-positive type; Region: polC_Gram_pos; TIGR01405 657319001783 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 657319001784 generic binding surface II; other site 657319001785 generic binding surface I; other site 657319001786 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657319001787 active site 657319001788 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 657319001789 active site 657319001790 catalytic site [active] 657319001791 substrate binding site [chemical binding]; other site 657319001792 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 657319001793 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 657319001794 hypothetical protein; Provisional; Region: PRK13670 657319001795 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 657319001796 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 657319001797 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657319001798 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 657319001799 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 657319001800 dimer interface [polypeptide binding]; other site 657319001801 motif 1; other site 657319001802 active site 657319001803 motif 2; other site 657319001804 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 657319001805 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 657319001806 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 657319001807 histidinol dehydrogenase; Region: hisD; TIGR00069 657319001808 NAD binding site [chemical binding]; other site 657319001809 dimerization interface [polypeptide binding]; other site 657319001810 product binding site; other site 657319001811 substrate binding site [chemical binding]; other site 657319001812 zinc binding site [ion binding]; other site 657319001813 catalytic residues [active] 657319001814 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 657319001815 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 657319001816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319001817 homodimer interface [polypeptide binding]; other site 657319001818 catalytic residue [active] 657319001819 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 657319001820 putative active site pocket [active] 657319001821 4-fold oligomerization interface [polypeptide binding]; other site 657319001822 metal binding residues [ion binding]; metal-binding site 657319001823 3-fold/trimer interface [polypeptide binding]; other site 657319001824 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 657319001825 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 657319001826 putative active site [active] 657319001827 oxyanion strand; other site 657319001828 catalytic triad [active] 657319001829 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 657319001830 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 657319001831 catalytic residues [active] 657319001832 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 657319001833 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 657319001834 substrate binding site [chemical binding]; other site 657319001835 glutamase interaction surface [polypeptide binding]; other site 657319001836 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 657319001837 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 657319001838 metal binding site [ion binding]; metal-binding site 657319001839 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 657319001840 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319001841 Smr domain; Region: Smr; cl02619 657319001842 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 657319001843 classical (c) SDRs; Region: SDR_c; cd05233 657319001844 NAD(P) binding site [chemical binding]; other site 657319001845 active site 657319001846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001847 Walker A/P-loop; other site 657319001848 ATP binding site [chemical binding]; other site 657319001849 Q-loop/lid; other site 657319001850 ABC transporter signature motif; other site 657319001851 Walker B; other site 657319001852 D-loop; other site 657319001853 H-loop/switch region; other site 657319001854 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657319001855 Zn2+ binding site [ion binding]; other site 657319001856 Mg2+ binding site [ion binding]; other site 657319001857 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657319001858 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 657319001859 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 657319001860 Walker A/P-loop; other site 657319001861 ATP binding site [chemical binding]; other site 657319001862 Q-loop/lid; other site 657319001863 ABC transporter signature motif; other site 657319001864 Walker B; other site 657319001865 D-loop; other site 657319001866 H-loop/switch region; other site 657319001867 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 657319001868 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 657319001869 Walker A/P-loop; other site 657319001870 ATP binding site [chemical binding]; other site 657319001871 Q-loop/lid; other site 657319001872 ABC transporter signature motif; other site 657319001873 Walker B; other site 657319001874 D-loop; other site 657319001875 H-loop/switch region; other site 657319001876 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657319001877 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 657319001878 TM-ABC transporter signature motif; other site 657319001879 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 657319001880 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657319001881 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 657319001882 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 657319001883 rRNA interaction site [nucleotide binding]; other site 657319001884 S8 interaction site; other site 657319001885 putative laminin-1 binding site; other site 657319001886 elongation factor Ts; Provisional; Region: tsf; PRK09377 657319001887 UBA/TS-N domain; Region: UBA; pfam00627 657319001888 Elongation factor TS; Region: EF_TS; pfam00889 657319001889 Elongation factor TS; Region: EF_TS; pfam00889 657319001890 elongation factor G; Reviewed; Region: PRK13351 657319001891 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 657319001892 G3 box; other site 657319001893 Switch II region; other site 657319001894 GTP/Mg2+ binding site [chemical binding]; other site 657319001895 G4 box; other site 657319001896 G5 box; other site 657319001897 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 657319001898 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 657319001899 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 657319001900 Methyltransferase domain; Region: Methyltransf_31; pfam13847 657319001901 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 657319001902 S-adenosylmethionine binding site [chemical binding]; other site 657319001903 integrase; Provisional; Region: int; PHA02601 657319001904 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 657319001905 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657319001906 Int/Topo IB signature motif; other site 657319001907 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319001908 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 657319001909 non-specific DNA binding site [nucleotide binding]; other site 657319001910 salt bridge; other site 657319001911 sequence-specific DNA binding site [nucleotide binding]; other site 657319001912 Helix-turn-helix domain; Region: HTH_17; cl17695 657319001913 MobA/MobL family; Region: MobA_MobL; pfam03389 657319001914 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657319001915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319001916 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 657319001917 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657319001918 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319001919 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319001920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001921 Walker A/P-loop; other site 657319001922 ATP binding site [chemical binding]; other site 657319001923 Q-loop/lid; other site 657319001924 ABC transporter signature motif; other site 657319001925 Walker B; other site 657319001926 D-loop; other site 657319001927 H-loop/switch region; other site 657319001928 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319001929 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319001930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001931 Walker A/P-loop; other site 657319001932 ATP binding site [chemical binding]; other site 657319001933 Q-loop/lid; other site 657319001934 ABC transporter signature motif; other site 657319001935 Walker B; other site 657319001936 D-loop; other site 657319001937 H-loop/switch region; other site 657319001938 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319001939 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; cl17257 657319001940 DNA binding residues [nucleotide binding] 657319001941 Helix-turn-helix domain; Region: HTH_16; pfam12645 657319001942 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657319001943 hypothetical protein; Validated; Region: PRK08116 657319001944 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 657319001945 Walker A motif; other site 657319001946 ATP binding site [chemical binding]; other site 657319001947 Walker B motif; other site 657319001948 arginine finger; other site 657319001949 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 657319001950 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 657319001951 dimer interface [polypeptide binding]; other site 657319001952 active site 657319001953 metal binding site [ion binding]; metal-binding site 657319001954 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 657319001955 intersubunit interface [polypeptide binding]; other site 657319001956 active site 657319001957 Zn2+ binding site [ion binding]; other site 657319001958 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 657319001959 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 657319001960 N- and C-terminal domain interface [polypeptide binding]; other site 657319001961 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 657319001962 active site 657319001963 putative catalytic site [active] 657319001964 metal binding site [ion binding]; metal-binding site 657319001965 ATP binding site [chemical binding]; other site 657319001966 carbohydrate binding site [chemical binding]; other site 657319001967 L-fucose isomerase; Provisional; Region: fucI; PRK10991 657319001968 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 657319001969 hexamer (dimer of trimers) interface [polypeptide binding]; other site 657319001970 trimer interface [polypeptide binding]; other site 657319001971 substrate binding site [chemical binding]; other site 657319001972 Mn binding site [ion binding]; other site 657319001973 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 657319001974 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657319001975 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 657319001976 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657319001977 conserved cys residue [active] 657319001978 LytTr DNA-binding domain; Region: LytTR; smart00850 657319001979 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 657319001980 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 657319001981 prephenate dehydrogenase; Validated; Region: PRK08507 657319001982 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319001983 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319001984 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319001985 Walker A/P-loop; other site 657319001986 ATP binding site [chemical binding]; other site 657319001987 Q-loop/lid; other site 657319001988 ABC transporter signature motif; other site 657319001989 Walker B; other site 657319001990 D-loop; other site 657319001991 H-loop/switch region; other site 657319001992 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319001993 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319001994 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657319001995 Walker A/P-loop; other site 657319001996 ATP binding site [chemical binding]; other site 657319001997 Q-loop/lid; other site 657319001998 ABC transporter signature motif; other site 657319001999 Walker B; other site 657319002000 D-loop; other site 657319002001 H-loop/switch region; other site 657319002002 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 657319002003 Radical SAM superfamily; Region: Radical_SAM; pfam04055 657319002004 FeS/SAM binding site; other site 657319002005 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319002006 Coenzyme A binding pocket [chemical binding]; other site 657319002007 Cupin domain; Region: Cupin_2; cl17218 657319002008 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657319002009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319002010 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 657319002011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 657319002012 hypothetical protein; Validated; Region: PRK00110 657319002013 Uncharacterized conserved protein [Function unknown]; Region: COG1284 657319002014 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657319002015 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 657319002016 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 657319002017 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 657319002018 active site 657319002019 metal binding site [ion binding]; metal-binding site 657319002020 dimerization interface [polypeptide binding]; other site 657319002021 GTPase CgtA; Reviewed; Region: obgE; PRK12297 657319002022 GTP1/OBG; Region: GTP1_OBG; pfam01018 657319002023 Obg GTPase; Region: Obg; cd01898 657319002024 G1 box; other site 657319002025 GTP/Mg2+ binding site [chemical binding]; other site 657319002026 Switch I region; other site 657319002027 G2 box; other site 657319002028 G3 box; other site 657319002029 Switch II region; other site 657319002030 G4 box; other site 657319002031 G5 box; other site 657319002032 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 657319002033 Protein of unknown function (DUF464); Region: DUF464; pfam04327 657319002034 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 657319002035 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 657319002036 GTP-binding protein YchF; Reviewed; Region: PRK09601 657319002037 YchF GTPase; Region: YchF; cd01900 657319002038 G1 box; other site 657319002039 GTP/Mg2+ binding site [chemical binding]; other site 657319002040 Switch I region; other site 657319002041 G2 box; other site 657319002042 Switch II region; other site 657319002043 G3 box; other site 657319002044 G4 box; other site 657319002045 G5 box; other site 657319002046 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 657319002047 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657319002048 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 657319002049 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 657319002050 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 657319002051 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 657319002052 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 657319002053 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 657319002054 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 657319002055 homodimer interface [polypeptide binding]; other site 657319002056 NADP binding site [chemical binding]; other site 657319002057 substrate binding site [chemical binding]; other site 657319002058 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 657319002059 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 657319002060 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 657319002061 putative homodimer interface [polypeptide binding]; other site 657319002062 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 657319002063 heterodimer interface [polypeptide binding]; other site 657319002064 homodimer interface [polypeptide binding]; other site 657319002065 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 657319002066 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 657319002067 23S rRNA interface [nucleotide binding]; other site 657319002068 L7/L12 interface [polypeptide binding]; other site 657319002069 putative thiostrepton binding site; other site 657319002070 L25 interface [polypeptide binding]; other site 657319002071 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 657319002072 mRNA/rRNA interface [nucleotide binding]; other site 657319002073 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 657319002074 active site 657319002075 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 657319002076 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 657319002077 Predicted membrane protein [Function unknown]; Region: COG3601 657319002078 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657319002079 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 657319002080 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319002081 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319002082 metal binding site [ion binding]; metal-binding site 657319002083 active site 657319002084 I-site; other site 657319002085 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 657319002086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657319002087 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657319002088 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319002089 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 657319002090 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 657319002091 ABC-ATPase subunit interface; other site 657319002092 dimer interface [polypeptide binding]; other site 657319002093 putative PBP binding regions; other site 657319002094 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 657319002095 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 657319002096 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 657319002097 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 657319002098 intersubunit interface [polypeptide binding]; other site 657319002099 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 657319002100 metal binding site 2 [ion binding]; metal-binding site 657319002101 putative DNA binding helix; other site 657319002102 metal binding site 1 [ion binding]; metal-binding site 657319002103 dimer interface [polypeptide binding]; other site 657319002104 structural Zn2+ binding site [ion binding]; other site 657319002105 Domain of unknown function (DUF305); Region: DUF305; pfam03713 657319002106 DHHW protein; Region: DHHW; pfam14286 657319002107 DHHW protein; Region: DHHW; pfam14286 657319002108 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 657319002109 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 657319002110 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 657319002111 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 657319002112 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 657319002113 motif 1; other site 657319002114 active site 657319002115 motif 2; other site 657319002116 motif 3; other site 657319002117 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 657319002118 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 657319002119 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 657319002120 intersubunit interface [polypeptide binding]; other site 657319002121 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 657319002122 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 657319002123 Walker A motif; other site 657319002124 ATP binding site [chemical binding]; other site 657319002125 Walker B motif; other site 657319002126 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 657319002127 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 657319002128 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 657319002129 active site 657319002130 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 657319002131 Malic enzyme, N-terminal domain; Region: malic; pfam00390 657319002132 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 657319002133 putative NAD(P) binding site [chemical binding]; other site 657319002134 TSCPD domain; Region: TSCPD; cl14834 657319002135 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 657319002136 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 657319002137 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 657319002138 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 657319002139 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 657319002140 threonine dehydratase; Provisional; Region: PRK08198 657319002141 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 657319002142 tetramer interface [polypeptide binding]; other site 657319002143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319002144 catalytic residue [active] 657319002145 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 657319002146 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 657319002147 homotrimer interaction site [polypeptide binding]; other site 657319002148 putative active site [active] 657319002149 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 657319002150 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 657319002151 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 657319002152 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 657319002153 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657319002154 Zn2+ binding site [ion binding]; other site 657319002155 Mg2+ binding site [ion binding]; other site 657319002156 NAD-dependent deacetylase; Provisional; Region: PRK00481 657319002157 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 657319002158 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657319002159 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657319002160 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 657319002161 30S subunit binding site; other site 657319002162 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 657319002163 active site 657319002164 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319002165 Interdomain contacts; other site 657319002166 Cytokine receptor motif; other site 657319002167 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319002168 Interdomain contacts; other site 657319002169 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319002170 Interdomain contacts; other site 657319002171 Cytokine receptor motif; other site 657319002172 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319002173 Interdomain contacts; other site 657319002174 Cytokine receptor motif; other site 657319002175 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657319002176 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 657319002177 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 657319002178 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319002179 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319002180 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657319002181 Walker A/P-loop; other site 657319002182 ATP binding site [chemical binding]; other site 657319002183 Q-loop/lid; other site 657319002184 ABC transporter signature motif; other site 657319002185 Walker B; other site 657319002186 D-loop; other site 657319002187 H-loop/switch region; other site 657319002188 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319002189 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319002190 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319002191 Walker A/P-loop; other site 657319002192 ATP binding site [chemical binding]; other site 657319002193 Q-loop/lid; other site 657319002194 ABC transporter signature motif; other site 657319002195 Walker B; other site 657319002196 D-loop; other site 657319002197 H-loop/switch region; other site 657319002198 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 657319002199 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657319002200 dihydrodipicolinate reductase; Provisional; Region: PRK00048 657319002201 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 657319002202 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 657319002203 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 657319002204 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 657319002205 dimer interface [polypeptide binding]; other site 657319002206 active site 657319002207 catalytic residue [active] 657319002208 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 657319002209 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657319002210 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319002211 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 657319002212 active site 657319002213 metal binding site [ion binding]; metal-binding site 657319002214 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 657319002215 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 657319002216 Domain of unknown function (DUF370); Region: DUF370; cl00898 657319002217 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 657319002218 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 657319002219 catalytic site [active] 657319002220 G-X2-G-X-G-K; other site 657319002221 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 657319002222 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 657319002223 ATP binding site [chemical binding]; other site 657319002224 putative Mg++ binding site [ion binding]; other site 657319002225 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 657319002226 ATP-binding site [chemical binding]; other site 657319002227 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 657319002228 active site 657319002229 catalytic residues [active] 657319002230 metal binding site [ion binding]; metal-binding site 657319002231 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 657319002232 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 657319002233 putative active site [active] 657319002234 substrate binding site [chemical binding]; other site 657319002235 putative cosubstrate binding site; other site 657319002236 catalytic site [active] 657319002237 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 657319002238 substrate binding site [chemical binding]; other site 657319002239 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 657319002240 16S rRNA methyltransferase B; Provisional; Region: PRK14902 657319002241 NusB family; Region: NusB; pfam01029 657319002242 putative RNA binding site [nucleotide binding]; other site 657319002243 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 657319002244 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 657319002245 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 657319002246 FeS/SAM binding site; other site 657319002247 Protein phosphatase 2C; Region: PP2C; pfam00481 657319002248 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 657319002249 active site 657319002250 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 657319002251 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 657319002252 active site 657319002253 ATP binding site [chemical binding]; other site 657319002254 substrate binding site [chemical binding]; other site 657319002255 activation loop (A-loop); other site 657319002256 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657319002257 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657319002258 Thiamine pyrophosphokinase; Region: TPK; cd07995 657319002259 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 657319002260 active site 657319002261 dimerization interface [polypeptide binding]; other site 657319002262 thiamine binding site [chemical binding]; other site 657319002263 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 657319002264 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 657319002265 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 657319002266 cofactor binding site; other site 657319002267 DNA binding site [nucleotide binding] 657319002268 substrate interaction site [chemical binding]; other site 657319002269 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 657319002270 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 657319002271 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 657319002272 YodL-like; Region: YodL; pfam14191 657319002273 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 657319002274 SpoVG; Region: SpoVG; cl00915 657319002275 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 657319002276 Cna protein B-type domain; Region: Cna_B; pfam05738 657319002277 Cna protein B-type domain; Region: Cna_B; pfam05738 657319002278 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 657319002279 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 657319002280 active site 657319002281 catalytic site [active] 657319002282 Domain of unknown function DUF87; Region: DUF87; pfam01935 657319002283 AAA-like domain; Region: AAA_10; pfam12846 657319002284 NlpC/P60 family; Region: NLPC_P60; cl17555 657319002285 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 657319002286 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 657319002287 trimer interface [polypeptide binding]; other site 657319002288 active site 657319002289 substrate binding site [chemical binding]; other site 657319002290 CoA binding site [chemical binding]; other site 657319002291 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 657319002292 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 657319002293 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 657319002294 Sel1-like repeats; Region: SEL1; smart00671 657319002295 Sel1-like repeats; Region: SEL1; smart00671 657319002296 Sel1-like repeats; Region: SEL1; smart00671 657319002297 Sel1-like repeats; Region: SEL1; smart00671 657319002298 Helix-turn-helix domain; Region: HTH_36; pfam13730 657319002299 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319002300 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 657319002301 sequence-specific DNA binding site [nucleotide binding]; other site 657319002302 salt bridge; other site 657319002303 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 657319002304 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 657319002305 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657319002306 non-specific DNA binding site [nucleotide binding]; other site 657319002307 salt bridge; other site 657319002308 sequence-specific DNA binding site [nucleotide binding]; other site 657319002309 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 657319002310 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 657319002311 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 657319002312 ATP binding site [chemical binding]; other site 657319002313 putative Mg++ binding site [ion binding]; other site 657319002314 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 657319002315 HsdM N-terminal domain; Region: HsdM_N; pfam12161 657319002316 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657319002317 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657319002318 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657319002319 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657319002320 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657319002321 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 657319002322 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 657319002323 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657319002324 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657319002325 Int/Topo IB signature motif; other site 657319002326 Uncharacterized conserved protein [Function unknown]; Region: COG4127 657319002327 Restriction endonuclease; Region: Mrr_cat; pfam04471 657319002328 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 657319002329 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 657319002330 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 657319002331 Catalytic site [active] 657319002332 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319002333 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 657319002334 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 657319002335 Coenzyme A binding pocket [chemical binding]; other site 657319002336 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 657319002337 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 657319002338 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319002339 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657319002340 catalytic residues [active] 657319002341 catalytic nucleophile [active] 657319002342 Recombinase; Region: Recombinase; pfam07508 657319002343 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319002344 Recombinase; Region: Recombinase; pfam07508 657319002345 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319002346 Amidinotransferase; Region: Amidinotransf; cl12043 657319002347 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319002348 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657319002349 catalytic residues [active] 657319002350 catalytic nucleophile [active] 657319002351 Recombinase; Region: Recombinase; pfam07508 657319002352 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319002353 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319002354 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 657319002355 putative catalytic residues [active] 657319002356 catalytic nucleophile [active] 657319002357 Recombinase; Region: Recombinase; pfam07508 657319002358 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 657319002359 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 657319002360 Virulence-associated protein E; Region: VirE; pfam05272 657319002361 CHC2 zinc finger; Region: zf-CHC2; cl17510 657319002362 MobA/MobL family; Region: MobA_MobL; pfam03389 657319002363 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319002364 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 657319002365 non-specific DNA binding site [nucleotide binding]; other site 657319002366 salt bridge; other site 657319002367 sequence-specific DNA binding site [nucleotide binding]; other site 657319002368 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657319002369 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319002370 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 657319002371 non-specific DNA binding site [nucleotide binding]; other site 657319002372 salt bridge; other site 657319002373 sequence-specific DNA binding site [nucleotide binding]; other site 657319002374 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 657319002375 Protein of unknown function; Region: DUF3658; pfam12395 657319002376 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 657319002377 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657319002378 salt bridge; other site 657319002379 non-specific DNA binding site [nucleotide binding]; other site 657319002380 sequence-specific DNA binding site [nucleotide binding]; other site 657319002381 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 657319002382 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 657319002383 catalytic residues [active] 657319002384 catalytic nucleophile [active] 657319002385 Recombinase; Region: Recombinase; pfam07508 657319002386 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 657319002387 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319002388 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 657319002389 non-specific DNA binding site [nucleotide binding]; other site 657319002390 salt bridge; other site 657319002391 sequence-specific DNA binding site [nucleotide binding]; other site 657319002392 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 657319002393 non-specific DNA binding site [nucleotide binding]; other site 657319002394 salt bridge; other site 657319002395 sequence-specific DNA binding site [nucleotide binding]; other site 657319002396 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319002397 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 657319002398 active site 657319002399 metal binding site [ion binding]; metal-binding site 657319002400 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657319002401 active site 657319002402 metal binding site [ion binding]; metal-binding site 657319002403 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319002404 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 657319002405 putative active site [active] 657319002406 putative metal binding site [ion binding]; other site 657319002407 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 657319002408 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 657319002409 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319002410 active site 657319002411 metal binding site [ion binding]; metal-binding site 657319002412 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 657319002413 ADP-ribose binding site [chemical binding]; other site 657319002414 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 657319002415 active site 657319002416 putative substrate binding region [chemical binding]; other site 657319002417 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 657319002418 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 657319002419 FeS/SAM binding site; other site 657319002420 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 657319002421 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 657319002422 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 657319002423 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 657319002424 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 657319002425 Catalytic site [active] 657319002426 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 657319002427 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 657319002428 GTP/Mg2+ binding site [chemical binding]; other site 657319002429 G4 box; other site 657319002430 G5 box; other site 657319002431 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 657319002432 G1 box; other site 657319002433 Switch I region; other site 657319002434 G2 box; other site 657319002435 G3 box; other site 657319002436 Switch II region; other site 657319002437 hypothetical protein; Reviewed; Region: PRK12497 657319002438 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 657319002439 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 657319002440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319002441 catalytic residue [active] 657319002442 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657319002443 active site 657319002444 metal binding site [ion binding]; metal-binding site 657319002445 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319002446 trigger factor; Provisional; Region: tig; PRK01490 657319002447 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 657319002448 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 657319002449 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 657319002450 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 657319002451 oligomer interface [polypeptide binding]; other site 657319002452 active site residues [active] 657319002453 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 657319002454 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 657319002455 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 657319002456 Walker A motif; other site 657319002457 ATP binding site [chemical binding]; other site 657319002458 Walker B motif; other site 657319002459 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657319002460 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 657319002461 16S/18S rRNA binding site [nucleotide binding]; other site 657319002462 S13e-L30e interaction site [polypeptide binding]; other site 657319002463 25S rRNA binding site [nucleotide binding]; other site 657319002464 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 657319002465 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 657319002466 RNase E interface [polypeptide binding]; other site 657319002467 trimer interface [polypeptide binding]; other site 657319002468 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 657319002469 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 657319002470 RNase E interface [polypeptide binding]; other site 657319002471 trimer interface [polypeptide binding]; other site 657319002472 active site 657319002473 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 657319002474 putative nucleic acid binding region [nucleotide binding]; other site 657319002475 G-X-X-G motif; other site 657319002476 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 657319002477 RNA binding site [nucleotide binding]; other site 657319002478 domain interface; other site 657319002479 Bacitracin resistance protein BacA; Region: BacA; pfam02673 657319002480 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657319002481 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 657319002482 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 657319002483 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 657319002484 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 657319002485 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 657319002486 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 657319002487 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 657319002488 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 657319002489 Isochorismatase family; Region: Isochorismatase; pfam00857 657319002490 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 657319002491 catalytic triad [active] 657319002492 conserved cis-peptide bond; other site 657319002493 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 657319002494 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 657319002495 active site 657319002496 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319002497 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319002498 Coenzyme A binding pocket [chemical binding]; other site 657319002499 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 657319002500 FMN binding site [chemical binding]; other site 657319002501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319002502 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 657319002503 Walker A/P-loop; other site 657319002504 ATP binding site [chemical binding]; other site 657319002505 Q-loop/lid; other site 657319002506 ABC transporter signature motif; other site 657319002507 Walker B; other site 657319002508 D-loop; other site 657319002509 H-loop/switch region; other site 657319002510 Domain of unknown function (DUF378); Region: DUF378; pfam04070 657319002511 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 657319002512 Clp amino terminal domain; Region: Clp_N; pfam02861 657319002513 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 657319002514 Walker A motif; other site 657319002515 ATP binding site [chemical binding]; other site 657319002516 Walker B motif; other site 657319002517 arginine finger; other site 657319002518 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 657319002519 Walker A motif; other site 657319002520 ATP binding site [chemical binding]; other site 657319002521 Walker B motif; other site 657319002522 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657319002523 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 657319002524 peptide chain release factor 1; Validated; Region: prfA; PRK00591 657319002525 PCRF domain; Region: PCRF; pfam03462 657319002526 RF-1 domain; Region: RF-1; pfam00472 657319002527 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 657319002528 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 657319002529 CoA-binding site [chemical binding]; other site 657319002530 ATP-binding [chemical binding]; other site 657319002531 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 657319002532 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 657319002533 N-acetyl-D-glucosamine binding site [chemical binding]; other site 657319002534 catalytic residue [active] 657319002535 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 657319002536 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 657319002537 oligomer interface [polypeptide binding]; other site 657319002538 putative active site [active] 657319002539 metal binding site [ion binding]; metal-binding site 657319002540 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 657319002541 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 657319002542 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 657319002543 nucleotide binding pocket [chemical binding]; other site 657319002544 K-X-D-G motif; other site 657319002545 catalytic site [active] 657319002546 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 657319002547 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 657319002548 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 657319002549 DNA binding site [nucleotide binding] 657319002550 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 657319002551 Dimer interface [polypeptide binding]; other site 657319002552 2-isopropylmalate synthase; Validated; Region: PRK03739 657319002553 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 657319002554 active site 657319002555 catalytic residues [active] 657319002556 metal binding site [ion binding]; metal-binding site 657319002557 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 657319002558 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657319002559 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657319002560 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 657319002561 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 657319002562 catalytic loop [active] 657319002563 iron binding site [ion binding]; other site 657319002564 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 657319002565 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 657319002566 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 657319002567 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 657319002568 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 657319002569 dimer interface [polypeptide binding]; other site 657319002570 [2Fe-2S] cluster binding site [ion binding]; other site 657319002571 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 657319002572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319002573 ATP binding site [chemical binding]; other site 657319002574 Mg2+ binding site [ion binding]; other site 657319002575 G-X-G motif; other site 657319002576 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 657319002577 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 657319002578 putative dimer interface [polypeptide binding]; other site 657319002579 [2Fe-2S] cluster binding site [ion binding]; other site 657319002580 Alpha amylase catalytic domain found in eukaryotic and bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_euk_bac_CMD_like; cd11353 657319002581 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 657319002582 active site 657319002583 catalytic site [active] 657319002584 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 657319002585 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 657319002586 active site 657319002587 motif I; other site 657319002588 motif II; other site 657319002589 Homoserine O-succinyltransferase; Region: HTS; pfam04204 657319002590 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 657319002591 proposed active site lysine [active] 657319002592 conserved cys residue [active] 657319002593 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 657319002594 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 657319002595 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 657319002596 active site 657319002597 metal binding site [ion binding]; metal-binding site 657319002598 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 657319002599 homodimer interface [polypeptide binding]; other site 657319002600 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657319002601 active site pocket [active] 657319002602 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 657319002603 HemN C-terminal domain; Region: HemN_C; pfam06969 657319002604 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 657319002605 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 657319002606 IHF dimer interface [polypeptide binding]; other site 657319002607 IHF - DNA interface [nucleotide binding]; other site 657319002608 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 657319002609 RNA binding surface [nucleotide binding]; other site 657319002610 YabP family; Region: YabP; cl06766 657319002611 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 657319002612 Septum formation initiator; Region: DivIC; pfam04977 657319002613 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 657319002614 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657319002615 putative efflux protein, MATE family; Region: matE; TIGR00797 657319002616 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 657319002617 dimer interface [polypeptide binding]; other site 657319002618 substrate binding site [chemical binding]; other site 657319002619 metal binding sites [ion binding]; metal-binding site 657319002620 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 657319002621 active site 657319002622 dimer interface [polypeptide binding]; other site 657319002623 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319002624 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 657319002625 non-specific DNA binding site [nucleotide binding]; other site 657319002626 salt bridge; other site 657319002627 sequence-specific DNA binding site [nucleotide binding]; other site 657319002628 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319002629 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319002630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319002631 Walker A/P-loop; other site 657319002632 ATP binding site [chemical binding]; other site 657319002633 Q-loop/lid; other site 657319002634 ABC transporter signature motif; other site 657319002635 Walker B; other site 657319002636 D-loop; other site 657319002637 H-loop/switch region; other site 657319002638 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319002639 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319002640 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319002641 Walker A/P-loop; other site 657319002642 ATP binding site [chemical binding]; other site 657319002643 Q-loop/lid; other site 657319002644 ABC transporter signature motif; other site 657319002645 Walker B; other site 657319002646 D-loop; other site 657319002647 H-loop/switch region; other site 657319002648 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657319002649 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657319002650 G1 box; other site 657319002651 GTP/Mg2+ binding site [chemical binding]; other site 657319002652 Switch I region; other site 657319002653 G2 box; other site 657319002654 G3 box; other site 657319002655 Switch II region; other site 657319002656 G4 box; other site 657319002657 G5 box; other site 657319002658 Nucleoside recognition; Region: Gate; pfam07670 657319002659 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657319002660 Nucleoside recognition; Region: Gate; pfam07670 657319002661 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 657319002662 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657319002663 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 657319002664 active site 657319002665 phosphorylation site [posttranslational modification] 657319002666 intermolecular recognition site; other site 657319002667 dimerization interface [polypeptide binding]; other site 657319002668 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319002669 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 657319002670 dimer interface [polypeptide binding]; other site 657319002671 phosphorylation site [posttranslational modification] 657319002672 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 657319002673 ATP binding site [chemical binding]; other site 657319002674 Mg2+ binding site [ion binding]; other site 657319002675 G-X-G motif; other site 657319002676 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 657319002677 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657319002678 dimer interface [polypeptide binding]; other site 657319002679 putative CheW interface [polypeptide binding]; other site 657319002680 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 657319002681 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 657319002682 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 657319002683 active site 657319002684 DNA binding site [nucleotide binding] 657319002685 Int/Topo IB signature motif; other site 657319002686 Plasmid replication protein; Region: Rep_2; pfam01719 657319002687 Zonular occludens toxin (Zot); Region: Zot; cl17485 657319002688 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 657319002689 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 657319002690 intersubunit interface [polypeptide binding]; other site 657319002691 active site 657319002692 zinc binding site [ion binding]; other site 657319002693 Na+ binding site [ion binding]; other site 657319002694 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 657319002695 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 657319002696 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 657319002697 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 657319002698 putative deacylase active site [active] 657319002699 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 657319002700 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 657319002701 FeS/SAM binding site; other site 657319002702 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 657319002703 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 657319002704 Late competence development protein ComFB; Region: ComFB; pfam10719 657319002705 Uncharacterized conserved protein [Function unknown]; Region: COG4198 657319002706 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 657319002707 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 657319002708 dimerization interface [polypeptide binding]; other site 657319002709 putative active cleft [active] 657319002710 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657319002711 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657319002712 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657319002713 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 657319002714 motif II; other site 657319002715 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 657319002716 MutS domain III; Region: MutS_III; pfam05192 657319002717 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 657319002718 Walker A/P-loop; other site 657319002719 ATP binding site [chemical binding]; other site 657319002720 Q-loop/lid; other site 657319002721 ABC transporter signature motif; other site 657319002722 Walker B; other site 657319002723 D-loop; other site 657319002724 H-loop/switch region; other site 657319002725 Smr domain; Region: Smr; pfam01713 657319002726 Recombination protein O N terminal; Region: RecO_N; pfam11967 657319002727 DNA repair protein RecO; Region: reco; TIGR00613 657319002728 Recombination protein O C terminal; Region: RecO_C; pfam02565 657319002729 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 657319002730 GTPase Era; Reviewed; Region: era; PRK00089 657319002731 G1 box; other site 657319002732 GTP/Mg2+ binding site [chemical binding]; other site 657319002733 Switch I region; other site 657319002734 G2 box; other site 657319002735 Switch II region; other site 657319002736 G3 box; other site 657319002737 G4 box; other site 657319002738 G5 box; other site 657319002739 KH domain; Region: KH_2; pfam07650 657319002740 metal-binding heat shock protein; Provisional; Region: PRK00016 657319002741 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 657319002742 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 657319002743 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 657319002744 YabP family; Region: YabP; pfam07873 657319002745 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657319002746 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657319002747 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 657319002748 active site 657319002749 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 657319002750 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 657319002751 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 657319002752 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 657319002753 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657319002754 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 657319002755 active site 657319002756 phosphorylation site [posttranslational modification] 657319002757 intermolecular recognition site; other site 657319002758 dimerization interface [polypeptide binding]; other site 657319002759 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 657319002760 DNA binding residues [nucleotide binding] 657319002761 dimerization interface [polypeptide binding]; other site 657319002762 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 657319002763 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 657319002764 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657319002765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319002766 Walker A/P-loop; other site 657319002767 ATP binding site [chemical binding]; other site 657319002768 Q-loop/lid; other site 657319002769 ABC transporter signature motif; other site 657319002770 Walker B; other site 657319002771 D-loop; other site 657319002772 H-loop/switch region; other site 657319002773 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 657319002774 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 657319002775 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 657319002776 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 657319002777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657319002778 Tim44-like domain; Region: Tim44; cl09208 657319002779 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 657319002780 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 657319002781 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 657319002782 iron binding site [ion binding]; other site 657319002783 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 657319002784 transmembrane helices; other site 657319002785 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 657319002786 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 657319002787 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 657319002788 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 657319002789 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 657319002790 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 657319002791 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 657319002792 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 657319002793 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 657319002794 Walker A motif; other site 657319002795 ATP binding site [chemical binding]; other site 657319002796 Walker B motif; other site 657319002797 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 657319002798 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 657319002799 dimer interface [polypeptide binding]; other site 657319002800 anticodon binding site; other site 657319002801 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 657319002802 homodimer interface [polypeptide binding]; other site 657319002803 motif 1; other site 657319002804 active site 657319002805 motif 2; other site 657319002806 GAD domain; Region: GAD; pfam02938 657319002807 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 657319002808 active site 657319002809 motif 3; other site 657319002810 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 657319002811 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 657319002812 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 657319002813 classical (c) SDRs; Region: SDR_c; cd05233 657319002814 NAD(P) binding site [chemical binding]; other site 657319002815 active site 657319002816 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 657319002817 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 657319002818 ATP cone domain; Region: ATP-cone; pfam03477 657319002819 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 657319002820 Class III ribonucleotide reductase; Region: RNR_III; cd01675 657319002821 active site 657319002822 Zn binding site [ion binding]; other site 657319002823 glycine loop; other site 657319002824 Domain of unknown function (DUF4358); Region: DUF4358; pfam14270 657319002825 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 657319002826 active site 657319002827 catalytic triad [active] 657319002828 oxyanion hole [active] 657319002829 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 657319002830 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 657319002831 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 657319002832 dimer interface [polypeptide binding]; other site 657319002833 ssDNA binding site [nucleotide binding]; other site 657319002834 tetramer (dimer of dimers) interface [polypeptide binding]; other site 657319002835 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 657319002836 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 657319002837 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 657319002838 nudix motif; other site 657319002839 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 657319002840 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 657319002841 G1 box; other site 657319002842 GTP/Mg2+ binding site [chemical binding]; other site 657319002843 G2 box; other site 657319002844 Switch I region; other site 657319002845 G3 box; other site 657319002846 Switch II region; other site 657319002847 G4 box; other site 657319002848 G5 box; other site 657319002849 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657319002850 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 657319002851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657319002852 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 657319002853 NAD(P) binding site [chemical binding]; other site 657319002854 active site 657319002855 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 657319002856 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 657319002857 Walker A motif; other site 657319002858 ATP binding site [chemical binding]; other site 657319002859 Walker B motif; other site 657319002860 arginine finger; other site 657319002861 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 657319002862 Walker A motif; other site 657319002863 ATP binding site [chemical binding]; other site 657319002864 Walker B motif; other site 657319002865 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 657319002866 PQQ-like domain; Region: PQQ_2; pfam13360 657319002867 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 657319002868 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 657319002869 dimerization interface 3.5A [polypeptide binding]; other site 657319002870 active site 657319002871 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 657319002872 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 657319002873 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657319002874 Walker A/P-loop; other site 657319002875 ATP binding site [chemical binding]; other site 657319002876 Q-loop/lid; other site 657319002877 ABC transporter signature motif; other site 657319002878 Walker B; other site 657319002879 D-loop; other site 657319002880 H-loop/switch region; other site 657319002881 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 657319002882 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 657319002883 Walker A motif; other site 657319002884 ATP binding site [chemical binding]; other site 657319002885 Walker B motif; other site 657319002886 arginine finger; other site 657319002887 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 657319002888 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 657319002889 RuvA N terminal domain; Region: RuvA_N; pfam01330 657319002890 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 657319002891 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 657319002892 active site 657319002893 putative DNA-binding cleft [nucleotide binding]; other site 657319002894 dimer interface [polypeptide binding]; other site 657319002895 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 657319002896 ApbE family; Region: ApbE; pfam02424 657319002897 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 657319002898 trimer interface [polypeptide binding]; other site 657319002899 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 657319002900 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 657319002901 dimer interface [polypeptide binding]; other site 657319002902 phosphorylation site [posttranslational modification] 657319002903 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 657319002904 ATP binding site [chemical binding]; other site 657319002905 Mg2+ binding site [ion binding]; other site 657319002906 G-X-G motif; other site 657319002907 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657319002908 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657319002909 DNA binding site [nucleotide binding] 657319002910 domain linker motif; other site 657319002911 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657319002912 Transcriptional regulators [Transcription]; Region: PurR; COG1609 657319002913 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 657319002914 DNA binding site [nucleotide binding] 657319002915 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 657319002916 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 657319002917 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 657319002918 active site 657319002919 FOG: CBS domain [General function prediction only]; Region: COG0517 657319002920 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 657319002921 Transporter associated domain; Region: CorC_HlyC; pfam03471 657319002922 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 657319002923 active site 657319002924 catalytic residues [active] 657319002925 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 657319002926 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 657319002927 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657319002928 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 657319002929 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 657319002930 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 657319002931 Protein of unknown function DUF58; Region: DUF58; pfam01882 657319002932 MoxR-like ATPases [General function prediction only]; Region: COG0714 657319002933 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 657319002934 Walker A motif; other site 657319002935 ATP binding site [chemical binding]; other site 657319002936 Walker B motif; other site 657319002937 arginine finger; other site 657319002938 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657319002939 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 657319002940 Protein of unknown function DUF58; Region: DUF58; pfam01882 657319002941 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657319002942 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 657319002943 putative ADP-binding pocket [chemical binding]; other site 657319002944 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 657319002945 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 657319002946 Helix-turn-helix domain; Region: HTH_36; pfam13730 657319002947 Transcriptional regulators [Transcription]; Region: MarR; COG1846 657319002948 Helix-turn-helix domain; Region: HTH_36; pfam13730 657319002949 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 657319002950 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657319002951 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 657319002952 active site 657319002953 metal binding site [ion binding]; metal-binding site 657319002954 interdomain interaction site; other site 657319002955 AAA-like domain; Region: AAA_10; pfam12846 657319002956 Cna protein B-type domain; Region: Cna_B; pfam05738 657319002957 Cna protein B-type domain; Region: Cna_B; pfam05738 657319002958 Cna protein B-type domain; Region: Cna_B; pfam05738 657319002959 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 657319002960 Uncharacterized conserved protein [Function unknown]; Region: COG3379 657319002961 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 657319002962 AAA-like domain; Region: AAA_10; pfam12846 657319002963 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 657319002964 Walker A motif; other site 657319002965 ATP binding site [chemical binding]; other site 657319002966 Walker B motif; other site 657319002967 SpoVG; Region: SpoVG; cl00915 657319002968 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319002969 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 657319002970 ParB-like nuclease domain; Region: ParBc; pfam02195 657319002971 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 657319002972 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 657319002973 S-adenosylmethionine binding site [chemical binding]; other site 657319002974 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319002975 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319002976 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657319002977 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 657319002978 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 657319002979 ParB-like nuclease domain; Region: ParBc; pfam02195 657319002980 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657319002981 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 657319002982 P-loop; other site 657319002983 Magnesium ion binding site [ion binding]; other site 657319002984 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 657319002985 Magnesium ion binding site [ion binding]; other site 657319002986 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 657319002987 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 657319002988 active site 657319002989 DNA binding site [nucleotide binding] 657319002990 Int/Topo IB signature motif; other site 657319002991 alanine racemase; Reviewed; Region: alr; PRK00053 657319002992 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 657319002993 active site 657319002994 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657319002995 dimer interface [polypeptide binding]; other site 657319002996 substrate binding site [chemical binding]; other site 657319002997 catalytic residues [active] 657319002998 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657319002999 Na2 binding site [ion binding]; other site 657319003000 putative substrate binding site 1 [chemical binding]; other site 657319003001 Na binding site 1 [ion binding]; other site 657319003002 putative substrate binding site 2 [chemical binding]; other site 657319003003 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657319003004 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 657319003005 acyl-activating enzyme (AAE) consensus motif; other site 657319003006 AMP binding site [chemical binding]; other site 657319003007 active site 657319003008 CoA binding site [chemical binding]; other site 657319003009 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 657319003010 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 657319003011 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 657319003012 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657319003013 PYR/PP interface [polypeptide binding]; other site 657319003014 TPP binding site [chemical binding]; other site 657319003015 dimer interface [polypeptide binding]; other site 657319003016 substrate binding site [chemical binding]; other site 657319003017 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 657319003018 TPP-binding site; other site 657319003019 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 657319003020 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 657319003021 Beta-galactosidase jelly roll domain; Region: BetaGal_dom4_5; pfam13364 657319003022 Glycosyl hydrolase family 59; Region: Glyco_hydro_59; pfam02057 657319003023 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657319003024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319003025 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657319003026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319003027 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319003028 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 657319003029 non-specific DNA binding site [nucleotide binding]; other site 657319003030 salt bridge; other site 657319003031 sequence-specific DNA binding site [nucleotide binding]; other site 657319003032 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657319003033 active site 657319003034 metal binding site [ion binding]; metal-binding site 657319003035 GGGtGRT protein; Region: GGGtGRT; pfam14057 657319003036 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 657319003037 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 657319003038 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657319003039 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 657319003040 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 657319003041 excinuclease ABC subunit B; Provisional; Region: PRK05298 657319003042 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 657319003043 ATP binding site [chemical binding]; other site 657319003044 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 657319003045 nucleotide binding region [chemical binding]; other site 657319003046 ATP-binding site [chemical binding]; other site 657319003047 Ultra-violet resistance protein B; Region: UvrB; pfam12344 657319003048 UvrB/uvrC motif; Region: UVR; pfam02151 657319003049 hypothetical protein; Reviewed; Region: PRK00024 657319003050 Helix-hairpin-helix motif; Region: HHH; pfam00633 657319003051 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 657319003052 MPN+ (JAMM) motif; other site 657319003053 Zinc-binding site [ion binding]; other site 657319003054 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 657319003055 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 657319003056 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657319003057 nucleotide binding site [chemical binding]; other site 657319003058 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 657319003059 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 657319003060 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 657319003061 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 657319003062 non-specific DNA binding site [nucleotide binding]; other site 657319003063 salt bridge; other site 657319003064 sequence-specific DNA binding site [nucleotide binding]; other site 657319003065 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 657319003066 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657319003067 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657319003068 Transposase IS200 like; Region: Y1_Tnp; pfam01797 657319003069 recombination factor protein RarA; Reviewed; Region: PRK13342 657319003070 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 657319003071 Walker A motif; other site 657319003072 ATP binding site [chemical binding]; other site 657319003073 Walker B motif; other site 657319003074 arginine finger; other site 657319003075 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 657319003076 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK06827 657319003077 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 657319003078 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657319003079 active site 657319003080 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 657319003081 active site 657319003082 intersubunit interactions; other site 657319003083 catalytic residue [active] 657319003084 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 657319003085 N- and C-terminal domain interface [polypeptide binding]; other site 657319003086 D-xylulose kinase; Region: XylB; TIGR01312 657319003087 active site 657319003088 MgATP binding site [chemical binding]; other site 657319003089 catalytic site [active] 657319003090 metal binding site [ion binding]; metal-binding site 657319003091 xylulose binding site [chemical binding]; other site 657319003092 homodimer interface [polypeptide binding]; other site 657319003093 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 657319003094 reactive center loop; other site 657319003095 6-phosphofructokinase; Provisional; Region: PRK03202 657319003096 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657319003097 active site 657319003098 ADP/pyrophosphate binding site [chemical binding]; other site 657319003099 dimerization interface [polypeptide binding]; other site 657319003100 allosteric effector site; other site 657319003101 fructose-1,6-bisphosphate binding site; other site 657319003102 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 657319003103 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657319003104 active site 657319003105 metal binding site [ion binding]; metal-binding site 657319003106 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 657319003107 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 657319003108 active site 657319003109 zinc binding site [ion binding]; other site 657319003110 dipeptidase PepV; Reviewed; Region: PRK07318 657319003111 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 657319003112 active site 657319003113 metal binding site [ion binding]; metal-binding site 657319003114 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 657319003115 putative active site [active] 657319003116 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 657319003117 23S rRNA interface [nucleotide binding]; other site 657319003118 L3 interface [polypeptide binding]; other site 657319003119 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 657319003120 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657319003121 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 657319003122 P-loop; other site 657319003123 Magnesium ion binding site [ion binding]; other site 657319003124 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 657319003125 Magnesium ion binding site [ion binding]; other site 657319003126 Helix-turn-helix domain; Region: HTH_36; pfam13730 657319003127 Protein of unknown function (DUF3801); Region: DUF3801; pfam12687 657319003128 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 657319003129 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 657319003130 Walker A motif; other site 657319003131 ATP binding site [chemical binding]; other site 657319003132 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 657319003133 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 657319003134 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 657319003135 putative active site [active] 657319003136 putative NTP binding site [chemical binding]; other site 657319003137 putative nucleic acid binding site [nucleotide binding]; other site 657319003138 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 657319003139 Maff2 family; Region: Maff2; pfam12750 657319003140 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 657319003141 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 657319003142 putative active site [active] 657319003143 putative NTP binding site [chemical binding]; other site 657319003144 putative nucleic acid binding site [nucleotide binding]; other site 657319003145 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 657319003146 active site 657319003147 Protein of unknown function (DUF3851); Region: DUF3851; pfam12962 657319003148 Domain of unknown function (DUF4315); Region: DUF4315; pfam14193 657319003149 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 657319003150 DNA topoisomerase III; Provisional; Region: PRK07726 657319003151 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 657319003152 active site 657319003153 putative interdomain interaction site [polypeptide binding]; other site 657319003154 putative metal-binding site [ion binding]; other site 657319003155 putative nucleotide binding site [chemical binding]; other site 657319003156 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 657319003157 domain I; other site 657319003158 DNA binding groove [nucleotide binding] 657319003159 phosphate binding site [ion binding]; other site 657319003160 domain II; other site 657319003161 domain III; other site 657319003162 nucleotide binding site [chemical binding]; other site 657319003163 catalytic site [active] 657319003164 domain IV; other site 657319003165 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657319003166 CHC2 zinc finger; Region: zf-CHC2; cl17510 657319003167 YodL-like; Region: YodL; pfam14191 657319003168 Domain of unknown function (DUF4316); Region: DUF4316; pfam14195 657319003169 Domain of unknown function (DUF4319); Region: DUF4319; pfam14203 657319003170 Methyltransferase domain; Region: Methyltransf_26; pfam13659 657319003171 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 657319003172 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319003173 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657319003174 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 657319003175 ATP binding site [chemical binding]; other site 657319003176 putative Mg++ binding site [ion binding]; other site 657319003177 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 657319003178 helicase superfamily c-terminal domain; Region: HELICc; smart00490 657319003179 Protein of unknown function (DUF3848); Region: DUF3848; pfam12959 657319003180 Protein of unknown function (DUF3849); Region: DUF3849; pfam12960 657319003181 Divergent AAA domain; Region: AAA_4; pfam04326 657319003182 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 657319003183 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 657319003184 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 657319003185 non-specific DNA binding site [nucleotide binding]; other site 657319003186 salt bridge; other site 657319003187 sequence-specific DNA binding site [nucleotide binding]; other site 657319003188 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 657319003189 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657319003190 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 657319003191 Walker A/P-loop; other site 657319003192 ATP binding site [chemical binding]; other site 657319003193 Q-loop/lid; other site 657319003194 ABC transporter signature motif; other site 657319003195 Walker B; other site 657319003196 D-loop; other site 657319003197 H-loop/switch region; other site 657319003198 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 657319003199 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 657319003200 Walker A/P-loop; other site 657319003201 ATP binding site [chemical binding]; other site 657319003202 Q-loop/lid; other site 657319003203 ABC transporter signature motif; other site 657319003204 Walker B; other site 657319003205 D-loop; other site 657319003206 H-loop/switch region; other site 657319003207 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657319003208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319003209 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319003210 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319003211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319003212 Walker A/P-loop; other site 657319003213 ATP binding site [chemical binding]; other site 657319003214 Q-loop/lid; other site 657319003215 ABC transporter signature motif; other site 657319003216 Walker B; other site 657319003217 D-loop; other site 657319003218 H-loop/switch region; other site 657319003219 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319003220 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319003221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319003222 Walker A/P-loop; other site 657319003223 ATP binding site [chemical binding]; other site 657319003224 Q-loop/lid; other site 657319003225 ABC transporter signature motif; other site 657319003226 Walker B; other site 657319003227 D-loop; other site 657319003228 H-loop/switch region; other site 657319003229 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 657319003230 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 657319003231 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 657319003232 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319003233 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 657319003234 DNA binding residues [nucleotide binding] 657319003235 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 657319003236 active site 657319003237 DNA binding site [nucleotide binding] 657319003238 Int/Topo IB signature motif; other site 657319003239 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 657319003240 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 657319003241 active site 657319003242 DNA binding site [nucleotide binding] 657319003243 Int/Topo IB signature motif; other site 657319003244 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 657319003245 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 657319003246 hinge; other site 657319003247 active site 657319003248 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 657319003249 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 657319003250 Tetramer interface [polypeptide binding]; other site 657319003251 active site 657319003252 FMN-binding site [chemical binding]; other site 657319003253 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 657319003254 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 657319003255 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 657319003256 DNA binding residues [nucleotide binding] 657319003257 putative dimer interface [polypeptide binding]; other site 657319003258 Putative motility protein; Region: YjfB_motility; pfam14070 657319003259 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 657319003260 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 657319003261 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 657319003262 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 657319003263 active site 657319003264 dimer interface [polypeptide binding]; other site 657319003265 motif 1; other site 657319003266 motif 2; other site 657319003267 motif 3; other site 657319003268 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 657319003269 anticodon binding site; other site 657319003270 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 657319003271 histidyl-tRNA synthetase; Region: hisS; TIGR00442 657319003272 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 657319003273 dimer interface [polypeptide binding]; other site 657319003274 motif 1; other site 657319003275 active site 657319003276 motif 2; other site 657319003277 motif 3; other site 657319003278 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 657319003279 anticodon binding site; other site 657319003280 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 657319003281 active site 657319003282 dimer interfaces [polypeptide binding]; other site 657319003283 catalytic residues [active] 657319003284 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 657319003285 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 657319003286 rod shape-determining protein MreC; Provisional; Region: PRK13922 657319003287 rod shape-determining protein MreC; Region: MreC; pfam04085 657319003288 rod shape-determining protein MreB; Provisional; Region: PRK13927 657319003289 MreB and similar proteins; Region: MreB_like; cd10225 657319003290 nucleotide binding site [chemical binding]; other site 657319003291 Mg binding site [ion binding]; other site 657319003292 putative protofilament interaction site [polypeptide binding]; other site 657319003293 RodZ interaction site [polypeptide binding]; other site 657319003294 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 657319003295 trimer interface [polypeptide binding]; other site 657319003296 active site 657319003297 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657319003298 Peptidase family U32; Region: Peptidase_U32; pfam01136 657319003299 Collagenase; Region: DUF3656; pfam12392 657319003300 Peptidase family U32; Region: Peptidase_U32; cl03113 657319003301 Cell division protein ZapA; Region: ZapA; pfam05164 657319003302 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 657319003303 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 657319003304 Cl binding site [ion binding]; other site 657319003305 oligomer interface [polypeptide binding]; other site 657319003306 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 657319003307 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 657319003308 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 657319003309 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 657319003310 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 657319003311 RNA binding site [nucleotide binding]; other site 657319003312 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 657319003313 catalytic core [active] 657319003314 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319003315 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 657319003316 non-specific DNA binding site [nucleotide binding]; other site 657319003317 salt bridge; other site 657319003318 sequence-specific DNA binding site [nucleotide binding]; other site 657319003319 stage V sporulation protein T; Region: spore_V_T; TIGR02851 657319003320 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 657319003321 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 657319003322 Putative esterase; Region: Esterase; pfam00756 657319003323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 657319003324 rod shape-determining protein MreB; Provisional; Region: PRK13930 657319003325 MreB and similar proteins; Region: MreB_like; cd10225 657319003326 nucleotide binding site [chemical binding]; other site 657319003327 Mg binding site [ion binding]; other site 657319003328 putative protofilament interaction site [polypeptide binding]; other site 657319003329 RodZ interaction site [polypeptide binding]; other site 657319003330 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 657319003331 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 657319003332 active site 657319003333 NTP binding site [chemical binding]; other site 657319003334 metal binding triad [ion binding]; metal-binding site 657319003335 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 657319003336 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 657319003337 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 657319003338 elongation factor Tu; Reviewed; Region: PRK00049 657319003339 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 657319003340 G1 box; other site 657319003341 GEF interaction site [polypeptide binding]; other site 657319003342 GTP/Mg2+ binding site [chemical binding]; other site 657319003343 Switch I region; other site 657319003344 G2 box; other site 657319003345 G3 box; other site 657319003346 Switch II region; other site 657319003347 G4 box; other site 657319003348 G5 box; other site 657319003349 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 657319003350 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 657319003351 Antibiotic Binding Site [chemical binding]; other site 657319003352 elongation factor G; Reviewed; Region: PRK00007 657319003353 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 657319003354 G1 box; other site 657319003355 putative GEF interaction site [polypeptide binding]; other site 657319003356 GTP/Mg2+ binding site [chemical binding]; other site 657319003357 Switch I region; other site 657319003358 G2 box; other site 657319003359 G3 box; other site 657319003360 Switch II region; other site 657319003361 G4 box; other site 657319003362 G5 box; other site 657319003363 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 657319003364 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 657319003365 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 657319003366 30S ribosomal protein S7; Validated; Region: PRK05302 657319003367 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 657319003368 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 657319003369 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 657319003370 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 657319003371 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 657319003372 RPB1 interaction site [polypeptide binding]; other site 657319003373 RPB10 interaction site [polypeptide binding]; other site 657319003374 RPB11 interaction site [polypeptide binding]; other site 657319003375 RPB3 interaction site [polypeptide binding]; other site 657319003376 RPB12 interaction site [polypeptide binding]; other site 657319003377 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 657319003378 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319003379 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319003380 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657319003381 Walker A/P-loop; other site 657319003382 ATP binding site [chemical binding]; other site 657319003383 Q-loop/lid; other site 657319003384 ABC transporter signature motif; other site 657319003385 Walker B; other site 657319003386 D-loop; other site 657319003387 H-loop/switch region; other site 657319003388 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657319003389 MarR family; Region: MarR_2; pfam12802 657319003390 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 657319003391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 657319003392 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 657319003393 dimerization interface [polypeptide binding]; other site 657319003394 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 657319003395 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 657319003396 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 657319003397 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 657319003398 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 657319003399 active site 657319003400 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 657319003401 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 657319003402 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 657319003403 FeS/SAM binding site; other site 657319003404 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 657319003405 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 657319003406 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657319003407 Zn2+ binding site [ion binding]; other site 657319003408 Mg2+ binding site [ion binding]; other site 657319003409 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 657319003410 synthetase active site [active] 657319003411 NTP binding site [chemical binding]; other site 657319003412 metal binding site [ion binding]; metal-binding site 657319003413 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 657319003414 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 657319003415 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 657319003416 DHH family; Region: DHH; pfam01368 657319003417 DHHA1 domain; Region: DHHA1; pfam02272 657319003418 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 657319003419 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 657319003420 dimerization interface [polypeptide binding]; other site 657319003421 domain crossover interface; other site 657319003422 redox-dependent activation switch; other site 657319003423 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 657319003424 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 657319003425 S-adenosylmethionine binding site [chemical binding]; other site 657319003426 Melibiase; Region: Melibiase; pfam02065 657319003427 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 657319003428 active site 657319003429 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 657319003430 putative NADH binding site [chemical binding]; other site 657319003431 putative active site [active] 657319003432 nudix motif; other site 657319003433 putative metal binding site [ion binding]; other site 657319003434 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 657319003435 UDP-glucose 4-epimerase; Region: PLN02240 657319003436 NAD binding site [chemical binding]; other site 657319003437 homodimer interface [polypeptide binding]; other site 657319003438 active site 657319003439 substrate binding site [chemical binding]; other site 657319003440 Rubrerythrin [Energy production and conversion]; Region: COG1592 657319003441 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657319003442 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_3; cd06253 657319003443 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 657319003444 putative active site [active] 657319003445 Zn binding site [ion binding]; other site 657319003446 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319003447 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319003448 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 657319003449 Walker A/P-loop; other site 657319003450 ATP binding site [chemical binding]; other site 657319003451 Q-loop/lid; other site 657319003452 ABC transporter signature motif; other site 657319003453 Walker B; other site 657319003454 D-loop; other site 657319003455 H-loop/switch region; other site 657319003456 Transcriptional regulators [Transcription]; Region: MarR; COG1846 657319003457 MarR family; Region: MarR_2; pfam12802 657319003458 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 657319003459 sporulation sigma factor SigE; Reviewed; Region: PRK08301 657319003460 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319003461 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 657319003462 DNA binding residues [nucleotide binding] 657319003463 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 657319003464 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 657319003465 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 657319003466 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 657319003467 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 657319003468 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 657319003469 RNA binding surface [nucleotide binding]; other site 657319003470 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 657319003471 Divergent PAP2 family; Region: DUF212; pfam02681 657319003472 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 657319003473 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 657319003474 substrate binding pocket [chemical binding]; other site 657319003475 chain length determination region; other site 657319003476 substrate-Mg2+ binding site; other site 657319003477 catalytic residues [active] 657319003478 aspartate-rich region 1; other site 657319003479 active site lid residues [active] 657319003480 aspartate-rich region 2; other site 657319003481 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 657319003482 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 657319003483 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 657319003484 generic binding surface II; other site 657319003485 generic binding surface I; other site 657319003486 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 657319003487 putative RNA binding site [nucleotide binding]; other site 657319003488 Asp23 family; Region: Asp23; pfam03780 657319003489 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 657319003490 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 657319003491 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 657319003492 GDP-binding site [chemical binding]; other site 657319003493 ACT binding site; other site 657319003494 IMP binding site; other site 657319003495 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 657319003496 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 657319003497 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 657319003498 active site 657319003499 metal binding site [ion binding]; metal-binding site 657319003500 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 657319003501 aconitate hydratase; Validated; Region: PRK07229 657319003502 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 657319003503 substrate binding site [chemical binding]; other site 657319003504 ligand binding site [chemical binding]; other site 657319003505 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 657319003506 substrate binding site [chemical binding]; other site 657319003507 isocitrate dehydrogenase; Validated; Region: PRK08299 657319003508 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 657319003509 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 657319003510 active site 657319003511 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 657319003512 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 657319003513 AsnC family; Region: AsnC_trans_reg; pfam01037 657319003514 hypothetical protein; Validated; Region: PRK07682 657319003515 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 657319003516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319003517 homodimer interface [polypeptide binding]; other site 657319003518 catalytic residue [active] 657319003519 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 657319003520 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657319003521 Asp23 family; Region: Asp23; cl00574 657319003522 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 657319003523 DAK2 domain; Region: Dak2; pfam02734 657319003524 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 657319003525 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 657319003526 generic binding surface II; other site 657319003527 ssDNA binding site; other site 657319003528 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 657319003529 putative Mg++ binding site [ion binding]; other site 657319003530 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 657319003531 nucleotide binding region [chemical binding]; other site 657319003532 ATP-binding site [chemical binding]; other site 657319003533 RNA methyltransferase, RsmE family; Region: TIGR00046 657319003534 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 657319003535 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 657319003536 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319003537 Coenzyme A binding pocket [chemical binding]; other site 657319003538 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 657319003539 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657319003540 DNA replication protein DnaC; Validated; Region: PRK06835 657319003541 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 657319003542 Walker A motif; other site 657319003543 ATP binding site [chemical binding]; other site 657319003544 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 657319003545 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 657319003546 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 657319003547 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 657319003548 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 657319003549 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 657319003550 active site 657319003551 metal binding site [ion binding]; metal-binding site 657319003552 homotetramer interface [polypeptide binding]; other site 657319003553 Coatomer WD associated region; Region: Coatomer_WDAD; pfam04053 657319003554 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_2; cd11348 657319003555 active site 657319003556 catalytic site [active] 657319003557 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 657319003558 V-type ATP synthase subunit B; Provisional; Region: PRK04196 657319003559 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657319003560 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 657319003561 Walker A motif homologous position; other site 657319003562 Walker B motif; other site 657319003563 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657319003564 V-type ATP synthase subunit A; Provisional; Region: PRK04192 657319003565 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657319003566 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 657319003567 Walker A motif/ATP binding site; other site 657319003568 Walker B motif; other site 657319003569 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657319003570 Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]; Region: NtpE; COG1390 657319003571 V-type ATP synthase subunit E; Provisional; Region: PRK01558 657319003572 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; pfam01990 657319003573 V-type ATP synthase subunit I; Validated; Region: PRK05771 657319003574 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 657319003575 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 657319003576 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 657319003577 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 657319003578 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 657319003579 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 657319003580 active site 657319003581 catalytic site [active] 657319003582 putative DNA binding site [nucleotide binding]; other site 657319003583 GIY-YIG motif/motif A; other site 657319003584 metal binding site [ion binding]; metal-binding site 657319003585 UvrB/uvrC motif; Region: UVR; pfam02151 657319003586 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 657319003587 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 657319003588 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 657319003589 S-adenosylmethionine binding site [chemical binding]; other site 657319003590 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 657319003591 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 657319003592 active site 657319003593 (T/H)XGH motif; other site 657319003594 Protein of unknown function (DUF1423); Region: DUF1423; pfam07227 657319003595 DNA primase; Validated; Region: dnaG; PRK05667 657319003596 CHC2 zinc finger; Region: zf-CHC2; pfam01807 657319003597 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 657319003598 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 657319003599 active site 657319003600 metal binding site [ion binding]; metal-binding site 657319003601 interdomain interaction site; other site 657319003602 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 657319003603 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 657319003604 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 657319003605 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 657319003606 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 657319003607 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319003608 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657319003609 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 657319003610 DNA binding residues [nucleotide binding] 657319003611 Rrf2 family protein; Region: rrf2_super; TIGR00738 657319003612 Transcriptional regulator; Region: Rrf2; pfam02082 657319003613 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657319003614 active site 657319003615 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 657319003616 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 657319003617 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 657319003618 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 657319003619 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 657319003620 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 657319003621 putative active site [active] 657319003622 putative metal binding site [ion binding]; other site 657319003623 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 657319003624 Peptidase family U32; Region: Peptidase_U32; pfam01136 657319003625 YceG-like family; Region: YceG; pfam02618 657319003626 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 657319003627 dimerization interface [polypeptide binding]; other site 657319003628 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 657319003629 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 657319003630 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 657319003631 conserved cys residue [active] 657319003632 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 657319003633 thymidylate kinase; Provisional; Region: PRK13975; cl17243 657319003634 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 657319003635 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 657319003636 ornithine carbamoyltransferase; Provisional; Region: PRK00779 657319003637 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 657319003638 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 657319003639 acetylornithine aminotransferase; Provisional; Region: PRK02627 657319003640 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 657319003641 inhibitor-cofactor binding pocket; inhibition site 657319003642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319003643 catalytic residue [active] 657319003644 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 657319003645 feedback inhibition sensing region; other site 657319003646 homohexameric interface [polypeptide binding]; other site 657319003647 nucleotide binding site [chemical binding]; other site 657319003648 N-acetyl-L-glutamate binding site [chemical binding]; other site 657319003649 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 657319003650 heterotetramer interface [polypeptide binding]; other site 657319003651 active site pocket [active] 657319003652 cleavage site 657319003653 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 657319003654 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 657319003655 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319003656 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 657319003657 Coenzyme A binding pocket [chemical binding]; other site 657319003658 argininosuccinate lyase; Provisional; Region: PRK00855 657319003659 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 657319003660 active sites [active] 657319003661 tetramer interface [polypeptide binding]; other site 657319003662 argininosuccinate synthase; Provisional; Region: PRK13820 657319003663 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 657319003664 ANP binding site [chemical binding]; other site 657319003665 Substrate Binding Site II [chemical binding]; other site 657319003666 Substrate Binding Site I [chemical binding]; other site 657319003667 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 657319003668 dimerization interface [polypeptide binding]; other site 657319003669 putative DNA binding site [nucleotide binding]; other site 657319003670 putative Zn2+ binding site [ion binding]; other site 657319003671 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 657319003672 metal-binding site [ion binding] 657319003673 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 657319003674 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657319003675 metal-binding site [ion binding] 657319003676 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657319003677 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 657319003678 motif II; other site 657319003679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 657319003680 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 657319003681 DNA protecting protein DprA; Region: dprA; TIGR00732 657319003682 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657319003683 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 657319003684 acyl-activating enzyme (AAE) consensus motif; other site 657319003685 AMP binding site [chemical binding]; other site 657319003686 active site 657319003687 CoA binding site [chemical binding]; other site 657319003688 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 657319003689 non-specific DNA binding site [nucleotide binding]; other site 657319003690 salt bridge; other site 657319003691 sequence-specific DNA binding site [nucleotide binding]; other site 657319003692 Cupin domain; Region: Cupin_2; pfam07883 657319003693 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 657319003694 Helix-hairpin-helix motif; Region: HHH; pfam00633 657319003695 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 657319003696 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 657319003697 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 657319003698 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657319003699 minor groove reading motif; other site 657319003700 helix-hairpin-helix signature motif; other site 657319003701 substrate binding pocket [chemical binding]; other site 657319003702 active site 657319003703 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 657319003704 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657319003705 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 657319003706 active site 657319003707 DNA binding site [nucleotide binding] 657319003708 Int/Topo IB signature motif; other site 657319003709 Domain of unknown function (DUF955); Region: DUF955; pfam06114 657319003710 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657319003711 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 657319003712 P-loop; other site 657319003713 Magnesium ion binding site [ion binding]; other site 657319003714 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 657319003715 Magnesium ion binding site [ion binding]; other site 657319003716 ParB-like nuclease domain; Region: ParBc; pfam02195 657319003717 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 657319003718 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 657319003719 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 657319003720 active site 657319003721 metal binding site [ion binding]; metal-binding site 657319003722 interdomain interaction site; other site 657319003723 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 657319003724 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 657319003725 Domain of unknown function DUF87; Region: DUF87; pfam01935 657319003726 AAA-like domain; Region: AAA_10; pfam12846 657319003727 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 657319003728 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 657319003729 non-specific DNA binding site [nucleotide binding]; other site 657319003730 salt bridge; other site 657319003731 sequence-specific DNA binding site [nucleotide binding]; other site 657319003732 preprotein translocase subunit SecA; Reviewed; Region: PRK09200 657319003733 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 657319003734 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 657319003735 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 657319003736 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657319003737 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657319003738 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657319003739 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657319003740 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657319003741 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 657319003742 IMP binding site; other site 657319003743 dimer interface [polypeptide binding]; other site 657319003744 interdomain contacts; other site 657319003745 partial ornithine binding site; other site 657319003746 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 657319003747 active site 657319003748 phosphorylation site [posttranslational modification] 657319003749 intermolecular recognition site; other site 657319003750 dimerization interface [polypeptide binding]; other site 657319003751 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 657319003752 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 657319003753 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 657319003754 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 657319003755 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 657319003756 motif II; other site 657319003757 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319003758 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657319003759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319003760 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 657319003761 substrate binding site [chemical binding]; other site 657319003762 active site 657319003763 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 657319003764 metal binding site [ion binding]; metal-binding site 657319003765 ligand binding site [chemical binding]; other site 657319003766 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 657319003767 active site 657319003768 catalytic residues [active] 657319003769 metal binding site [ion binding]; metal-binding site 657319003770 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 657319003771 NMT1/THI5 like; Region: NMT1; pfam09084 657319003772 membrane-bound complex binding site; other site 657319003773 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 657319003774 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 657319003775 ABC-ATPase subunit interface; other site 657319003776 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 657319003777 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 657319003778 Walker A/P-loop; other site 657319003779 ATP binding site [chemical binding]; other site 657319003780 Q-loop/lid; other site 657319003781 ABC transporter signature motif; other site 657319003782 Walker B; other site 657319003783 D-loop; other site 657319003784 H-loop/switch region; other site 657319003785 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 657319003786 dimer interface [polypeptide binding]; other site 657319003787 substrate binding site [chemical binding]; other site 657319003788 ATP binding site [chemical binding]; other site 657319003789 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 657319003790 thiamine phosphate binding site [chemical binding]; other site 657319003791 active site 657319003792 pyrophosphate binding site [ion binding]; other site 657319003793 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 657319003794 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 657319003795 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 657319003796 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 657319003797 active site 657319003798 Predicted transcriptional regulators [Transcription]; Region: COG1695 657319003799 Transcriptional regulator PadR-like family; Region: PadR; cl17335 657319003800 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319003801 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319003802 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319003803 Walker A/P-loop; other site 657319003804 ATP binding site [chemical binding]; other site 657319003805 Q-loop/lid; other site 657319003806 ABC transporter signature motif; other site 657319003807 Walker B; other site 657319003808 D-loop; other site 657319003809 H-loop/switch region; other site 657319003810 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319003811 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319003812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319003813 Walker A/P-loop; other site 657319003814 ATP binding site [chemical binding]; other site 657319003815 Q-loop/lid; other site 657319003816 ABC transporter signature motif; other site 657319003817 Walker B; other site 657319003818 D-loop; other site 657319003819 H-loop/switch region; other site 657319003820 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 657319003821 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657319003822 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 657319003823 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 657319003824 active site 657319003825 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657319003826 substrate binding site [chemical binding]; other site 657319003827 catalytic residues [active] 657319003828 dimer interface [polypeptide binding]; other site 657319003829 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 657319003830 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 657319003831 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 657319003832 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 657319003833 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 657319003834 active site 657319003835 phosphorylation site [posttranslational modification] 657319003836 intermolecular recognition site; other site 657319003837 dimerization interface [polypeptide binding]; other site 657319003838 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 657319003839 DNA binding residues [nucleotide binding] 657319003840 dimerization interface [polypeptide binding]; other site 657319003841 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657319003842 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 657319003843 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657319003844 UDP-galactopyranose mutase; Region: GLF; pfam03275 657319003845 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 657319003846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 657319003847 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 657319003848 NAD(P) binding site [chemical binding]; other site 657319003849 active site 657319003850 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 657319003851 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 657319003852 NAD binding site [chemical binding]; other site 657319003853 homotetramer interface [polypeptide binding]; other site 657319003854 homodimer interface [polypeptide binding]; other site 657319003855 substrate binding site [chemical binding]; other site 657319003856 active site 657319003857 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 657319003858 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 657319003859 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 657319003860 substrate binding site; other site 657319003861 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 657319003862 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 657319003863 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 657319003864 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 657319003865 substrate binding site [chemical binding]; other site 657319003866 ATP binding site [chemical binding]; other site 657319003867 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 657319003868 active site 657319003869 catalytic residues [active] 657319003870 metal binding site [ion binding]; metal-binding site 657319003871 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 657319003872 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 657319003873 Ligand binding site; other site 657319003874 oligomer interface; other site 657319003875 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 657319003876 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 657319003877 DNA binding residues [nucleotide binding] 657319003878 sporulation sigma factor SigG; Reviewed; Region: PRK08215 657319003879 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319003880 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657319003881 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 657319003882 DNA binding residues [nucleotide binding] 657319003883 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 657319003884 Uncharacterized protein domain similar to Clostridium thermocellum 2751; Region: Cthe_2751_like; cd11743 657319003885 HIRAN domain; Region: HIRAN; cl07418 657319003886 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319003887 Leucine rich repeat; Region: LRR_8; pfam13855 657319003888 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 657319003889 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 657319003890 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 657319003891 Walker A motif; other site 657319003892 ATP binding site [chemical binding]; other site 657319003893 Walker B motif; other site 657319003894 Family description; Region: UvrD_C_2; pfam13538 657319003895 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657319003896 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 657319003897 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 657319003898 active site 657319003899 catalytic site [active] 657319003900 substrate binding site [chemical binding]; other site 657319003901 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319003902 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319003903 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319003904 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 657319003905 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 657319003906 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 657319003907 NAD synthetase; Reviewed; Region: nadE; PRK02628 657319003908 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 657319003909 multimer interface [polypeptide binding]; other site 657319003910 active site 657319003911 catalytic triad [active] 657319003912 protein interface 1 [polypeptide binding]; other site 657319003913 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 657319003914 homodimer interface [polypeptide binding]; other site 657319003915 NAD binding pocket [chemical binding]; other site 657319003916 ATP binding pocket [chemical binding]; other site 657319003917 Mg binding site [ion binding]; other site 657319003918 active-site loop [active] 657319003919 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 657319003920 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 657319003921 non-specific DNA binding site [nucleotide binding]; other site 657319003922 salt bridge; other site 657319003923 sequence-specific DNA binding site [nucleotide binding]; other site 657319003924 XamI restriction endonuclease; Region: RE_XamI; pfam09572 657319003925 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657319003926 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657319003927 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 657319003928 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 657319003929 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657319003930 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657319003931 FtsX-like permease family; Region: FtsX; pfam02687 657319003932 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 657319003933 HlyD family secretion protein; Region: HlyD_3; pfam13437 657319003934 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319003935 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319003936 Walker A/P-loop; other site 657319003937 ATP binding site [chemical binding]; other site 657319003938 Q-loop/lid; other site 657319003939 ABC transporter signature motif; other site 657319003940 Walker B; other site 657319003941 D-loop; other site 657319003942 H-loop/switch region; other site 657319003943 MarR family; Region: MarR_2; cl17246 657319003944 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 657319003945 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 657319003946 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 657319003947 Radical SAM superfamily; Region: Radical_SAM; pfam04055 657319003948 FeS/SAM binding site; other site 657319003949 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657319003950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319003951 Walker A/P-loop; other site 657319003952 ATP binding site [chemical binding]; other site 657319003953 Q-loop/lid; other site 657319003954 ABC transporter signature motif; other site 657319003955 Walker B; other site 657319003956 D-loop; other site 657319003957 H-loop/switch region; other site 657319003958 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 657319003959 metal binding site [ion binding]; metal-binding site 657319003960 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657319003961 Tropomyosin like; Region: Tropomyosin_1; pfam12718 657319003962 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 657319003963 active site 657319003964 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 657319003965 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 657319003966 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 657319003967 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 657319003968 Peptidase family M50; Region: Peptidase_M50; pfam02163 657319003969 active site 657319003970 putative substrate binding region [chemical binding]; other site 657319003971 ScpA/B protein; Region: ScpA_ScpB; cl00598 657319003972 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 657319003973 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657319003974 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657319003975 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 657319003976 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 657319003977 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 657319003978 RNA binding surface [nucleotide binding]; other site 657319003979 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 657319003980 active site 657319003981 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 657319003982 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 657319003983 substrate binding site [chemical binding]; other site 657319003984 oxyanion hole (OAH) forming residues; other site 657319003985 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 657319003986 carboxyltransferase (CT) interaction site; other site 657319003987 biotinylation site [posttranslational modification]; other site 657319003988 RNHCP domain; Region: RNHCP; pfam12647 657319003989 L-ribulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 657319003990 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 657319003991 putative N- and C-terminal domain interface [polypeptide binding]; other site 657319003992 putative active site [active] 657319003993 MgATP binding site [chemical binding]; other site 657319003994 catalytic site [active] 657319003995 metal binding site [ion binding]; metal-binding site 657319003996 putative carbohydrate binding site [chemical binding]; other site 657319003997 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 657319003998 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; cd00398 657319003999 intersubunit interface [polypeptide binding]; other site 657319004000 active site 657319004001 Zn2+ binding site [ion binding]; other site 657319004002 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657319004003 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 657319004004 active site 657319004005 phosphorylation site [posttranslational modification] 657319004006 intermolecular recognition site; other site 657319004007 dimerization interface [polypeptide binding]; other site 657319004008 LytTr DNA-binding domain; Region: LytTR; smart00850 657319004009 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 657319004010 ATP binding site [chemical binding]; other site 657319004011 Mg2+ binding site [ion binding]; other site 657319004012 G-X-G motif; other site 657319004013 Accessory gene regulator B; Region: AgrB; pfam04647 657319004014 FtsX-like permease family; Region: FtsX; pfam02687 657319004015 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657319004016 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319004017 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319004018 Walker A/P-loop; other site 657319004019 ATP binding site [chemical binding]; other site 657319004020 Q-loop/lid; other site 657319004021 ABC transporter signature motif; other site 657319004022 Walker B; other site 657319004023 D-loop; other site 657319004024 H-loop/switch region; other site 657319004025 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 657319004026 PLD-like domain; Region: PLDc_2; pfam13091 657319004027 putative homodimer interface [polypeptide binding]; other site 657319004028 putative active site [active] 657319004029 catalytic site [active] 657319004030 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 657319004031 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 657319004032 ATP binding site [chemical binding]; other site 657319004033 putative Mg++ binding site [ion binding]; other site 657319004034 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 657319004035 nucleotide binding region [chemical binding]; other site 657319004036 ATP-binding site [chemical binding]; other site 657319004037 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 657319004038 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 657319004039 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 657319004040 ligand binding site [chemical binding]; other site 657319004041 dimerization interface [polypeptide binding]; other site 657319004042 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 657319004043 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657319004044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319004045 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 657319004046 substrate binding site [chemical binding]; other site 657319004047 active site 657319004048 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 657319004049 metal binding site [ion binding]; metal-binding site 657319004050 ligand binding site [chemical binding]; other site 657319004051 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 657319004052 substrate binding site [chemical binding]; other site 657319004053 active site 657319004054 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 657319004055 metal binding site [ion binding]; metal-binding site 657319004056 ligand binding site [chemical binding]; other site 657319004057 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319004058 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 657319004059 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 657319004060 non-specific DNA binding site [nucleotide binding]; other site 657319004061 salt bridge; other site 657319004062 sequence-specific DNA binding site [nucleotide binding]; other site 657319004063 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 657319004064 ATP binding site [chemical binding]; other site 657319004065 Mg2+ binding site [ion binding]; other site 657319004066 G-X-G motif; other site 657319004067 Z1 domain; Region: Z1; pfam10593 657319004068 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 657319004069 AIPR protein; Region: AIPR; pfam10592 657319004070 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 657319004071 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 657319004072 cofactor binding site; other site 657319004073 DNA binding site [nucleotide binding] 657319004074 substrate interaction site [chemical binding]; other site 657319004075 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 657319004076 additional DNA contacts [nucleotide binding]; other site 657319004077 mismatch recognition site; other site 657319004078 active site 657319004079 zinc binding site [ion binding]; other site 657319004080 DNA intercalation site [nucleotide binding]; other site 657319004081 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 657319004082 Mg2+ binding site [ion binding]; other site 657319004083 G-X-G motif; other site 657319004084 TIR domain; Region: TIR_2; pfam13676 657319004085 Protein of unknown function (DUF3782); Region: DUF3782; pfam12644 657319004086 Helix-turn-helix domain; Region: HTH_17; cl17695 657319004087 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 657319004088 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657319004089 Int/Topo IB signature motif; other site 657319004090 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 657319004091 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 657319004092 Int/Topo IB signature motif; other site 657319004093 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 657319004094 Cellulose binding domain; Region: CBM_2; pfam00553 657319004095 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 657319004096 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319004097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 657319004098 YbbR-like protein; Region: YbbR; pfam07949 657319004099 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 657319004100 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657319004101 dimer interface [polypeptide binding]; other site 657319004102 PYR/PP interface [polypeptide binding]; other site 657319004103 TPP binding site [chemical binding]; other site 657319004104 substrate binding site [chemical binding]; other site 657319004105 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 657319004106 Domain of unknown function; Region: EKR; smart00890 657319004107 4Fe-4S binding domain; Region: Fer4_6; pfam12837 657319004108 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 657319004109 TPP-binding site [chemical binding]; other site 657319004110 dimer interface [polypeptide binding]; other site 657319004111 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 657319004112 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 657319004113 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_GTP; cd00819 657319004114 active site 657319004115 substrate-binding site [chemical binding]; other site 657319004116 metal-binding site [ion binding] 657319004117 GTP binding site [chemical binding]; other site 657319004118 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 657319004119 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 657319004120 dimer interface [polypeptide binding]; other site 657319004121 conserved gate region; other site 657319004122 putative PBP binding loops; other site 657319004123 ABC-ATPase subunit interface; other site 657319004124 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657319004125 AIR carboxylase; Region: AIRC; pfam00731 657319004126 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 657319004127 active site 657319004128 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657319004129 active site 657319004130 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 657319004131 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 657319004132 active site 657319004133 tetramer interface [polypeptide binding]; other site 657319004134 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657319004135 active site 657319004136 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 657319004137 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 657319004138 dimerization interface [polypeptide binding]; other site 657319004139 putative ATP binding site [chemical binding]; other site 657319004140 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 657319004141 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 657319004142 active site 657319004143 substrate binding site [chemical binding]; other site 657319004144 cosubstrate binding site; other site 657319004145 catalytic site [active] 657319004146 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 657319004147 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional; Region: PRK07106 657319004148 AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]; Region: PurH; COG0138 657319004149 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 657319004150 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 657319004151 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 657319004152 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 657319004153 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 657319004154 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 657319004155 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 657319004156 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 657319004157 Preprotein translocase SecG subunit; Region: SecG; pfam03840 657319004158 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657319004159 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 657319004160 active site 657319004161 phosphorylation site [posttranslational modification] 657319004162 intermolecular recognition site; other site 657319004163 dimerization interface [polypeptide binding]; other site 657319004164 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 657319004165 DNA binding site [nucleotide binding] 657319004166 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 657319004167 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319004168 dimer interface [polypeptide binding]; other site 657319004169 phosphorylation site [posttranslational modification] 657319004170 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 657319004171 ATP binding site [chemical binding]; other site 657319004172 Mg2+ binding site [ion binding]; other site 657319004173 G-X-G motif; other site 657319004174 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 657319004175 nudix motif; other site 657319004176 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 657319004177 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 657319004178 motif II; other site 657319004179 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319004180 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 657319004181 non-specific DNA binding site [nucleotide binding]; other site 657319004182 salt bridge; other site 657319004183 sequence-specific DNA binding site [nucleotide binding]; other site 657319004184 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 657319004185 potassium/proton antiporter; Reviewed; Region: PRK05326 657319004186 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 657319004187 TrkA-C domain; Region: TrkA_C; pfam02080 657319004188 TrkA-C domain; Region: TrkA_C; pfam02080 657319004189 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 657319004190 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 657319004191 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 657319004192 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 657319004193 motif II; other site 657319004194 Acylphosphatase; Region: Acylphosphatase; pfam00708 657319004195 Cache domain; Region: Cache_1; pfam02743 657319004196 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657319004197 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657319004198 dimer interface [polypeptide binding]; other site 657319004199 putative CheW interface [polypeptide binding]; other site 657319004200 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 657319004201 peptide chain release factor 2; Validated; Region: prfB; PRK00578 657319004202 This domain is found in peptide chain release factors; Region: PCRF; smart00937 657319004203 RF-1 domain; Region: RF-1; pfam00472 657319004204 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 657319004205 TRAM domain; Region: TRAM; cl01282 657319004206 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 657319004207 S-adenosylmethionine binding site [chemical binding]; other site 657319004208 Domain of unknown function (DUF3825); Region: DUF3825; pfam12873 657319004209 Rubrerythrin [Energy production and conversion]; Region: COG1592 657319004210 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 657319004211 binuclear metal center [ion binding]; other site 657319004212 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657319004213 iron binding site [ion binding]; other site 657319004214 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 657319004215 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 657319004216 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 657319004217 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 657319004218 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 657319004219 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 657319004220 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 657319004221 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 657319004222 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 657319004223 active site 657319004224 nucleophile elbow; other site 657319004225 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 657319004226 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 657319004227 S-adenosylmethionine binding site [chemical binding]; other site 657319004228 Uncharacterized conserved protein [Function unknown]; Region: COG1479 657319004229 Protein of unknown function DUF262; Region: DUF262; pfam03235 657319004230 Protein of unknown function DUF262; Region: DUF262; pfam03235 657319004231 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 657319004232 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 657319004233 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 657319004234 SEC-C motif; Region: SEC-C; pfam02810 657319004235 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657319004236 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657319004237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319004238 MFS/sugar transport protein; Region: MFS_2; pfam13347 657319004239 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 657319004240 putative substrate translocation pore; other site 657319004241 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 657319004242 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 657319004243 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 657319004244 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 657319004245 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 657319004246 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657319004247 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657319004248 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 657319004249 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 657319004250 active site 657319004251 metal binding site [ion binding]; metal-binding site 657319004252 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 657319004253 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 657319004254 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 657319004255 putative metal binding residues [ion binding]; other site 657319004256 signature motif; other site 657319004257 dimer interface [polypeptide binding]; other site 657319004258 active site 657319004259 polyP binding site; other site 657319004260 substrate binding site [chemical binding]; other site 657319004261 acceptor-phosphate pocket; other site 657319004262 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 657319004263 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 657319004264 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657319004265 Domain of unknown function (DUF368); Region: DUF368; cl00893 657319004266 Domain of unknown function (DUF368); Region: DUF368; pfam04018 657319004267 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 657319004268 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 657319004269 linker region; other site 657319004270 Spectrin repeats; Region: SPEC; smart00150 657319004271 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657319004272 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657319004273 Ligand binding site; other site 657319004274 Putative Catalytic site; other site 657319004275 DXD motif; other site 657319004276 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 657319004277 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 657319004278 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 657319004279 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 657319004280 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 657319004281 Haemolytic domain; Region: Haemolytic; pfam01809 657319004282 Ribonuclease P; Region: Ribonuclease_P; cl00457 657319004283 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 657319004284 Endoglucanase E-like members of the SGNH hydrolase family; Endoglucanase E catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; Region: Endoglucanase_E_like; cd01831 657319004285 active site 657319004286 catalytic triad [active] 657319004287 oxyanion hole [active] 657319004288 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 657319004289 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319004290 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319004291 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 657319004292 DNA binding residues [nucleotide binding] 657319004293 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 657319004294 dimerization interface [polypeptide binding]; other site 657319004295 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657319004296 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657319004297 dimer interface [polypeptide binding]; other site 657319004298 putative CheW interface [polypeptide binding]; other site 657319004299 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657319004300 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319004301 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 657319004302 DNA binding residues [nucleotide binding] 657319004303 FeoA domain; Region: FeoA; pfam04023 657319004304 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 657319004305 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 657319004306 G1 box; other site 657319004307 GTP/Mg2+ binding site [chemical binding]; other site 657319004308 Switch I region; other site 657319004309 G2 box; other site 657319004310 G3 box; other site 657319004311 Switch II region; other site 657319004312 G4 box; other site 657319004313 G5 box; other site 657319004314 Nucleoside recognition; Region: Gate; pfam07670 657319004315 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 657319004316 Nucleoside recognition; Region: Gate; pfam07670 657319004317 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 657319004318 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 657319004319 hypothetical protein; Provisional; Region: PRK09609 657319004320 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657319004321 6-phosphofructokinase; Provisional; Region: PRK03202 657319004322 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657319004323 active site 657319004324 ADP/pyrophosphate binding site [chemical binding]; other site 657319004325 dimerization interface [polypeptide binding]; other site 657319004326 allosteric effector site; other site 657319004327 fructose-1,6-bisphosphate binding site; other site 657319004328 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 657319004329 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 657319004330 shikimate kinase; Provisional; Region: PRK13947 657319004331 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 657319004332 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 657319004333 nucleotide binding site [chemical binding]; other site 657319004334 putative hydrolase; Validated; Region: PRK09248 657319004335 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 657319004336 active site 657319004337 HPr kinase/phosphorylase; Provisional; Region: PRK05428 657319004338 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 657319004339 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 657319004340 Hpr binding site; other site 657319004341 active site 657319004342 homohexamer subunit interaction site [polypeptide binding]; other site 657319004343 Rubrerythrin [Energy production and conversion]; Region: COG1592 657319004344 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 657319004345 binuclear metal center [ion binding]; other site 657319004346 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657319004347 iron binding site [ion binding]; other site 657319004348 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 657319004349 Domain of unknown function DUF; Region: DUF204; pfam02659 657319004350 Domain of unknown function DUF; Region: DUF204; pfam02659 657319004351 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657319004352 Zn2+ binding site [ion binding]; other site 657319004353 Mg2+ binding site [ion binding]; other site 657319004354 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 657319004355 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 657319004356 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319004357 Double zinc ribbon; Region: DZR; pfam12773 657319004358 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 657319004359 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 657319004360 DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]; Region: PolC; COG2176 657319004361 stage II sporulation protein P; Region: spore_II_P; TIGR02867 657319004362 Germination protease; Region: Peptidase_A25; cl04057 657319004363 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 657319004364 NodB motif; other site 657319004365 active site 657319004366 catalytic site [active] 657319004367 Cd binding site [ion binding]; other site 657319004368 hypothetical protein; Provisional; Region: PRK05473 657319004369 DivIVA protein; Region: DivIVA; pfam05103 657319004370 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 657319004371 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 657319004372 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 657319004373 active site 657319004374 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 657319004375 substrate binding site [chemical binding]; other site 657319004376 active site 657319004377 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 657319004378 ligand binding site [chemical binding]; other site 657319004379 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 657319004380 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 657319004381 dimer interface [polypeptide binding]; other site 657319004382 active site 657319004383 metal binding site [ion binding]; metal-binding site 657319004384 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 657319004385 EamA-like transporter family; Region: EamA; pfam00892 657319004386 EamA-like transporter family; Region: EamA; pfam00892 657319004387 stage II sporulation protein E; Region: spore_II_E; TIGR02865 657319004388 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 657319004389 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 657319004390 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 657319004391 active site 657319004392 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 657319004393 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 657319004394 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 657319004395 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 657319004396 Walker A/P-loop; other site 657319004397 ATP binding site [chemical binding]; other site 657319004398 Q-loop/lid; other site 657319004399 ABC transporter signature motif; other site 657319004400 Walker B; other site 657319004401 D-loop; other site 657319004402 H-loop/switch region; other site 657319004403 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 657319004404 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 657319004405 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 657319004406 putative ADP-binding pocket [chemical binding]; other site 657319004407 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657319004408 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657319004409 cheY-homologous receiver domain; Region: REC; smart00448 657319004410 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 657319004411 DNA binding site [nucleotide binding] 657319004412 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 657319004413 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 657319004414 ring oligomerisation interface [polypeptide binding]; other site 657319004415 ATP/Mg binding site [chemical binding]; other site 657319004416 stacking interactions; other site 657319004417 hinge regions; other site 657319004418 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 657319004419 inhibitor binding site; inhibition site 657319004420 active site 657319004421 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 657319004422 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657319004423 acyl-activating enzyme (AAE) consensus motif; other site 657319004424 AMP binding site [chemical binding]; other site 657319004425 active site 657319004426 CoA binding site [chemical binding]; other site 657319004427 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 657319004428 putative deacylase active site [active] 657319004429 Predicted membrane protein [Function unknown]; Region: COG2510 657319004430 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 657319004431 Predicted membrane protein [Function unknown]; Region: COG2510 657319004432 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 657319004433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319004434 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 657319004435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319004436 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 657319004437 N-terminal domain of cellobiose phosphorylase (CBP) and similar proteins; Region: GH94N_CBP_like; cd11754 657319004438 catalytic domain interface [polypeptide binding]; other site 657319004439 homodimer interface [polypeptide binding]; other site 657319004440 putative active site [active] 657319004441 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 657319004442 Short C-terminal domain; Region: SHOCT; pfam09851 657319004443 Helix-turn-helix domain; Region: HTH_17; pfam12728 657319004444 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 657319004445 non-specific DNA binding site [nucleotide binding]; other site 657319004446 salt bridge; other site 657319004447 sequence-specific DNA binding site [nucleotide binding]; other site 657319004448 Predicted membrane protein [Function unknown]; Region: COG1511 657319004449 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 657319004450 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 657319004451 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 657319004452 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 657319004453 heterodimer interface [polypeptide binding]; other site 657319004454 active site 657319004455 FMN binding site [chemical binding]; other site 657319004456 homodimer interface [polypeptide binding]; other site 657319004457 substrate binding site [chemical binding]; other site 657319004458 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 657319004459 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 657319004460 FAD binding pocket [chemical binding]; other site 657319004461 FAD binding motif [chemical binding]; other site 657319004462 phosphate binding motif [ion binding]; other site 657319004463 beta-alpha-beta structure motif; other site 657319004464 NAD binding pocket [chemical binding]; other site 657319004465 Iron coordination center [ion binding]; other site 657319004466 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 657319004467 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657319004468 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657319004469 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 657319004470 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657319004471 ATP-grasp domain; Region: ATP-grasp_4; cl17255 657319004472 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 657319004473 IMP binding site; other site 657319004474 dimer interface [polypeptide binding]; other site 657319004475 interdomain contacts; other site 657319004476 partial ornithine binding site; other site 657319004477 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 657319004478 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 657319004479 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 657319004480 catalytic site [active] 657319004481 subunit interface [polypeptide binding]; other site 657319004482 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 657319004483 active site 657319004484 dimer interface [polypeptide binding]; other site 657319004485 dihydroorotase; Validated; Region: pyrC; PRK09357 657319004486 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 657319004487 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 657319004488 active site 657319004489 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 657319004490 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 657319004491 nudix motif; other site 657319004492 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 657319004493 catalytic core [active] 657319004494 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 657319004495 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 657319004496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319004497 homodimer interface [polypeptide binding]; other site 657319004498 catalytic residue [active] 657319004499 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 657319004500 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 657319004501 PYR/PP interface [polypeptide binding]; other site 657319004502 dimer interface [polypeptide binding]; other site 657319004503 TPP binding site [chemical binding]; other site 657319004504 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 657319004505 transketolase; Reviewed; Region: PRK05899 657319004506 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 657319004507 TPP-binding site [chemical binding]; other site 657319004508 dimer interface [polypeptide binding]; other site 657319004509 Protein of unknown function (DUF554); Region: DUF554; pfam04474 657319004510 Probable zinc-binding domain; Region: zf-trcl; pfam13451 657319004511 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 657319004512 translocation protein TolB; Provisional; Region: tolB; PRK04792 657319004513 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 657319004514 Part of AAA domain; Region: AAA_19; pfam13245 657319004515 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 657319004516 AAA domain; Region: AAA_12; pfam13087 657319004517 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 657319004518 putative active site [active] 657319004519 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 657319004520 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319004521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319004522 metal binding site [ion binding]; metal-binding site 657319004523 active site 657319004524 I-site; other site 657319004525 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 657319004526 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 657319004527 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 657319004528 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657319004529 catalytic residue [active] 657319004530 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 657319004531 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 657319004532 trimerization site [polypeptide binding]; other site 657319004533 active site 657319004534 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 657319004535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319004536 Coenzyme A binding pocket [chemical binding]; other site 657319004537 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 657319004538 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657319004539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319004540 Walker A/P-loop; other site 657319004541 ATP binding site [chemical binding]; other site 657319004542 Q-loop/lid; other site 657319004543 ABC transporter signature motif; other site 657319004544 Walker B; other site 657319004545 D-loop; other site 657319004546 H-loop/switch region; other site 657319004547 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 657319004548 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 657319004549 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 657319004550 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 657319004551 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 657319004552 putative alpha-glucosidase; Provisional; Region: PRK10658 657319004553 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 657319004554 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 657319004555 active site 657319004556 homotrimer interface [polypeptide binding]; other site 657319004557 catalytic site [active] 657319004558 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 657319004559 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319004560 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 657319004561 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319004562 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319004563 Interdomain contacts; other site 657319004564 Cytokine receptor motif; other site 657319004565 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319004566 Interdomain contacts; other site 657319004567 Cytokine receptor motif; other site 657319004568 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319004569 Interdomain contacts; other site 657319004570 Cytokine receptor motif; other site 657319004571 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; cl00364 657319004572 L11 interface [polypeptide binding]; other site 657319004573 putative EF-Tu interaction site [polypeptide binding]; other site 657319004574 putative EF-G interaction site [polypeptide binding]; other site 657319004575 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 657319004576 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 657319004577 dimer interface [polypeptide binding]; other site 657319004578 active site 657319004579 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 657319004580 Ligand Binding Site [chemical binding]; other site 657319004581 Molecular Tunnel; other site 657319004582 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 657319004583 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319004584 salt bridge; other site 657319004585 non-specific DNA binding site [nucleotide binding]; other site 657319004586 sequence-specific DNA binding site [nucleotide binding]; other site 657319004587 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 657319004588 Helix-turn-helix domain; Region: HTH_38; pfam13936 657319004589 Integrase core domain; Region: rve; pfam00665 657319004590 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 657319004591 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 657319004592 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319004593 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 657319004594 non-specific DNA binding site [nucleotide binding]; other site 657319004595 salt bridge; other site 657319004596 sequence-specific DNA binding site [nucleotide binding]; other site 657319004597 myosin-cross-reactive antigen; Provisional; Region: PRK13977 657319004598 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 657319004599 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 657319004600 Predicted membrane protein [Function unknown]; Region: COG4709 657319004601 Predicted transcriptional regulators [Transcription]; Region: COG1695 657319004602 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 657319004603 putative Zn2+ binding site [ion binding]; other site 657319004604 putative DNA binding site [nucleotide binding]; other site 657319004605 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 657319004606 putative ligand binding site [chemical binding]; other site 657319004607 putative NAD binding site [chemical binding]; other site 657319004608 putative catalytic site [active] 657319004609 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 657319004610 L-serine binding site [chemical binding]; other site 657319004611 ACT domain interface; other site 657319004612 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 657319004613 homodimer interface [polypeptide binding]; other site 657319004614 substrate-cofactor binding pocket; other site 657319004615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319004616 catalytic residue [active] 657319004617 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319004618 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 657319004619 non-specific DNA binding site [nucleotide binding]; other site 657319004620 salt bridge; other site 657319004621 sequence-specific DNA binding site [nucleotide binding]; other site 657319004622 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 657319004623 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 657319004624 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 657319004625 FAD binding pocket [chemical binding]; other site 657319004626 FAD binding motif [chemical binding]; other site 657319004627 phosphate binding motif [ion binding]; other site 657319004628 beta-alpha-beta structure motif; other site 657319004629 NAD binding pocket [chemical binding]; other site 657319004630 Iron coordination center [ion binding]; other site 657319004631 putative oxidoreductase; Provisional; Region: PRK12831 657319004632 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 657319004633 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657319004634 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657319004635 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657319004636 Zn2+ binding site [ion binding]; other site 657319004637 Mg2+ binding site [ion binding]; other site 657319004638 RNA polymerase sigma factor; Provisional; Region: PRK12512 657319004639 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 657319004640 Part of AAA domain; Region: AAA_19; pfam13245 657319004641 Family description; Region: UvrD_C_2; pfam13538 657319004642 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657319004643 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 657319004644 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 657319004645 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657319004646 Double zinc ribbon; Region: DZR; pfam12773 657319004647 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 657319004648 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 657319004649 glutaminase active site [active] 657319004650 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 657319004651 dimer interface [polypeptide binding]; other site 657319004652 active site 657319004653 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 657319004654 dimer interface [polypeptide binding]; other site 657319004655 active site 657319004656 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 657319004657 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 657319004658 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 657319004659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319004660 homodimer interface [polypeptide binding]; other site 657319004661 catalytic residue [active] 657319004662 The LytC lysozyme of Streptococcus pneumoniae is a bacterial cell wall hydrolase that cleaves the beta1-4-glycosydic bond located between the N-acetylmuramoyl-N-glucosaminyl residues of the cell wall polysaccharide chains. LytC is composed of a...; Region: GH25_LytC-like; cd06414 657319004663 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 657319004664 active site 657319004665 Holin family; Region: Phage_holin_4; pfam05105 657319004666 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 657319004667 trimer interface [polypeptide binding]; other site 657319004668 Phage tail protein; Region: Sipho_tail; cl17486 657319004669 Mu-like prophage protein [General function prediction only]; Region: COG3941 657319004670 tape measure domain; Region: tape_meas_nterm; TIGR02675 657319004671 Phage Terminase; Region: Terminase_1; pfam03354 657319004672 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 657319004673 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 657319004674 Phage capsid family; Region: Phage_capsid; pfam05065 657319004675 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 657319004676 Phage-related protein [Function unknown]; Region: COG4695; cl01923 657319004677 Phage portal protein; Region: Phage_portal; pfam04860 657319004678 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; cl00083 657319004679 DNA polymerase III PolC; Validated; Region: polC; PRK00448 657319004680 Endodeoxyribonuclease RusA; Region: RusA; cl01885 657319004681 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 657319004682 RecA-family ATPase [DNA replication, recombination, and repair]; Region: RepA; COG3598 657319004683 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 657319004684 Walker A motif; other site 657319004685 ATP binding site [chemical binding]; other site 657319004686 Walker B motif; other site 657319004687 DEAD-like helicases superfamily; Region: DEXDc; smart00487 657319004688 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 657319004689 ATP binding site [chemical binding]; other site 657319004690 putative Mg++ binding site [ion binding]; other site 657319004691 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 657319004692 nucleotide binding region [chemical binding]; other site 657319004693 ATP-binding site [chemical binding]; other site 657319004694 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 657319004695 AAA domain; Region: AAA_24; pfam13479 657319004696 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319004697 AAA domain; Region: AAA_23; pfam13476 657319004698 Walker A/P-loop; other site 657319004699 ATP binding site [chemical binding]; other site 657319004700 Q-loop/lid; other site 657319004701 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 657319004702 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 657319004703 PcfJ-like protein; Region: PcfJ; pfam14284 657319004704 Helix-turn-helix domain; Region: HTH_17; pfam12728 657319004705 Prophage antirepressor [Transcription]; Region: COG3617 657319004706 BRO family, N-terminal domain; Region: Bro-N; smart01040 657319004707 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 657319004708 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 657319004709 non-specific DNA binding site [nucleotide binding]; other site 657319004710 salt bridge; other site 657319004711 sequence-specific DNA binding site [nucleotide binding]; other site 657319004712 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 657319004713 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 657319004714 active site 657319004715 catalytic site [active] 657319004716 substrate binding site [chemical binding]; other site 657319004717 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 657319004718 Dimer interface [polypeptide binding]; other site 657319004719 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 657319004720 active site 657319004721 DNA binding site [nucleotide binding] 657319004722 Int/Topo IB signature motif; other site 657319004723 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 657319004724 Sulfate transporter family; Region: Sulfate_transp; pfam00916 657319004725 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 657319004726 Mor transcription activator family; Region: Mor; cl02360 657319004727 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 657319004728 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 657319004729 RNA/DNA hybrid binding site [nucleotide binding]; other site 657319004730 active site 657319004731 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657319004732 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 657319004733 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 657319004734 motif II; other site 657319004735 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 657319004736 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 657319004737 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 657319004738 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 657319004739 Walker A/P-loop; other site 657319004740 ATP binding site [chemical binding]; other site 657319004741 Q-loop/lid; other site 657319004742 ABC transporter signature motif; other site 657319004743 Walker B; other site 657319004744 D-loop; other site 657319004745 H-loop/switch region; other site 657319004746 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 657319004747 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 657319004748 active site 657319004749 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 657319004750 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 657319004751 putative ADP-binding pocket [chemical binding]; other site 657319004752 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 657319004753 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 657319004754 FeS/SAM binding site; other site 657319004755 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 657319004756 Pyruvate formate lyase 1; Region: PFL1; cd01678 657319004757 coenzyme A binding site [chemical binding]; other site 657319004758 active site 657319004759 catalytic residues [active] 657319004760 glycine loop; other site 657319004761 ACT domain-containing protein [General function prediction only]; Region: COG4747 657319004762 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 657319004763 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 657319004764 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 657319004765 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 657319004766 acyl-activating enzyme (AAE) consensus motif; other site 657319004767 AMP binding site [chemical binding]; other site 657319004768 active site 657319004769 CoA binding site [chemical binding]; other site 657319004770 Putative amidase domain; Region: Amidase_6; pfam12671 657319004771 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 657319004772 Ligand Binding Site [chemical binding]; other site 657319004773 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657319004774 FtsX-like permease family; Region: FtsX; pfam02687 657319004775 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657319004776 FtsX-like permease family; Region: FtsX; pfam02687 657319004777 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 657319004778 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 657319004779 HlyD family secretion protein; Region: HlyD_3; pfam13437 657319004780 CTP synthetase; Validated; Region: pyrG; PRK05380 657319004781 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 657319004782 Catalytic site [active] 657319004783 active site 657319004784 UTP binding site [chemical binding]; other site 657319004785 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 657319004786 active site 657319004787 putative oxyanion hole; other site 657319004788 catalytic triad [active] 657319004789 polyphosphate kinase; Provisional; Region: PRK05443 657319004790 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 657319004791 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 657319004792 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 657319004793 putative active site [active] 657319004794 catalytic site [active] 657319004795 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 657319004796 putative domain interface [polypeptide binding]; other site 657319004797 putative active site [active] 657319004798 catalytic site [active] 657319004799 VPS10 domain; Region: VPS10; smart00602 657319004800 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 657319004801 putative metal binding site [ion binding]; other site 657319004802 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; pfam02156 657319004803 heat shock protein 90; Provisional; Region: PRK05218 657319004804 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 657319004805 ATP binding site [chemical binding]; other site 657319004806 Mg2+ binding site [ion binding]; other site 657319004807 G-X-G motif; other site 657319004808 Transcriptional regulators [Transcription]; Region: MarR; COG1846 657319004809 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 657319004810 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 657319004811 Fungal protein of unknown function (DUF1742); Region: DUF1742; pfam08432 657319004812 Domain of unknown function (DUF4200); Region: DUF4200; pfam13863 657319004813 Outer membrane efflux protein; Region: OEP; pfam02321 657319004814 FtsX-like permease family; Region: FtsX; pfam02687 657319004815 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 657319004816 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657319004817 FtsX-like permease family; Region: FtsX; pfam02687 657319004818 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319004819 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319004820 Walker A/P-loop; other site 657319004821 ATP binding site [chemical binding]; other site 657319004822 Q-loop/lid; other site 657319004823 ABC transporter signature motif; other site 657319004824 Walker B; other site 657319004825 D-loop; other site 657319004826 H-loop/switch region; other site 657319004827 S-adenosylmethionine synthetase; Validated; Region: PRK05250 657319004828 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 657319004829 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 657319004830 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 657319004831 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 657319004832 Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]; Region: RpsA; COG0539 657319004833 S1 RNA binding domain; Region: S1; pfam00575 657319004834 RNA binding site [nucleotide binding]; other site 657319004835 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 657319004836 RNA binding site [nucleotide binding]; other site 657319004837 Fn3 associated; Region: Fn3_assoc; pfam13287 657319004838 CotH protein; Region: CotH; pfam08757 657319004839 Lamin Tail Domain; Region: LTD; pfam00932 657319004840 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 657319004841 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 657319004842 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 657319004843 active site 657319004844 substrate binding site [chemical binding]; other site 657319004845 metal binding site [ion binding]; metal-binding site 657319004846 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 657319004847 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 657319004848 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 657319004849 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 657319004850 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657319004851 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657319004852 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319004853 Double zinc ribbon; Region: DZR; pfam12773 657319004854 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 657319004855 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 657319004856 FeS/SAM binding site; other site 657319004857 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319004858 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 657319004859 sequence-specific DNA binding site [nucleotide binding]; other site 657319004860 salt bridge; other site 657319004861 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 657319004862 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 657319004863 active site 657319004864 substrate binding site [chemical binding]; other site 657319004865 trimer interface [polypeptide binding]; other site 657319004866 CoA binding site [chemical binding]; other site 657319004867 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 657319004868 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 657319004869 dimer interface [polypeptide binding]; other site 657319004870 active site 657319004871 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 657319004872 catalytic residues [active] 657319004873 substrate binding site [chemical binding]; other site 657319004874 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 657319004875 dimerization domain swap beta strand [polypeptide binding]; other site 657319004876 regulatory protein interface [polypeptide binding]; other site 657319004877 active site 657319004878 regulatory phosphorylation site [posttranslational modification]; other site 657319004879 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 657319004880 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 657319004881 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 657319004882 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 657319004883 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 657319004884 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 657319004885 HflX GTPase family; Region: HflX; cd01878 657319004886 G1 box; other site 657319004887 GTP/Mg2+ binding site [chemical binding]; other site 657319004888 Switch I region; other site 657319004889 G2 box; other site 657319004890 G3 box; other site 657319004891 Switch II region; other site 657319004892 G4 box; other site 657319004893 G5 box; other site 657319004894 L-aspartate oxidase; Provisional; Region: PRK06175 657319004895 L-aspartate oxidase; Provisional; Region: PRK09077 657319004896 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 657319004897 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 657319004898 dimerization interface [polypeptide binding]; other site 657319004899 active site 657319004900 C2 domain; Region: C2; cl14603 657319004901 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 657319004902 nudix motif; other site 657319004903 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 657319004904 core dimer interface [polypeptide binding]; other site 657319004905 peripheral dimer interface [polypeptide binding]; other site 657319004906 L10 interface [polypeptide binding]; other site 657319004907 L11 interface [polypeptide binding]; other site 657319004908 putative EF-Tu interaction site [polypeptide binding]; other site 657319004909 putative EF-G interaction site [polypeptide binding]; other site 657319004910 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 657319004911 23S rRNA interface [nucleotide binding]; other site 657319004912 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 657319004913 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 657319004914 Catalytic NodB homology domain of Clostridium thermocellum acetylxylan esterase and its bacterial homologs; Region: CE4_CtAXE_like; cd10954 657319004915 NodB motif; other site 657319004916 active site 657319004917 catalytic site [active] 657319004918 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 657319004919 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657319004920 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657319004921 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 657319004922 DpnII restriction endonuclease; Region: DpnII; pfam04556 657319004923 Protein of unknown function (DUF511); Region: DUF511; pfam04373 657319004924 DNA methylase; Region: N6_N4_Mtase; cl17433 657319004925 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 657319004926 S-adenosylmethionine binding site [chemical binding]; other site 657319004927 DNA methylase; Region: N6_N4_Mtase; cl17433 657319004928 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657319004929 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 657319004930 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 657319004931 active site 657319004932 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 657319004933 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 657319004934 putative ligand binding site [chemical binding]; other site 657319004935 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 657319004936 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 657319004937 Walker A/P-loop; other site 657319004938 ATP binding site [chemical binding]; other site 657319004939 Q-loop/lid; other site 657319004940 ABC transporter signature motif; other site 657319004941 Walker B; other site 657319004942 D-loop; other site 657319004943 H-loop/switch region; other site 657319004944 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 657319004945 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657319004946 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 657319004947 TM-ABC transporter signature motif; other site 657319004948 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 657319004949 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 657319004950 TM-ABC transporter signature motif; other site 657319004951 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 657319004952 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319004953 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 657319004954 DNA binding residues [nucleotide binding] 657319004955 Phosphoglycerate kinase; Region: PGK; pfam00162 657319004956 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 657319004957 substrate binding site [chemical binding]; other site 657319004958 hinge regions; other site 657319004959 ADP binding site [chemical binding]; other site 657319004960 catalytic site [active] 657319004961 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 657319004962 triosephosphate isomerase; Provisional; Region: PRK14565 657319004963 substrate binding site [chemical binding]; other site 657319004964 dimer interface [polypeptide binding]; other site 657319004965 catalytic triad [active] 657319004966 phosphoglyceromutase; Provisional; Region: PRK05434 657319004967 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 657319004968 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 657319004969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319004970 Coenzyme A binding pocket [chemical binding]; other site 657319004971 DNA polymerase I; Provisional; Region: PRK05755 657319004972 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 657319004973 active site 657319004974 metal binding site 1 [ion binding]; metal-binding site 657319004975 putative 5' ssDNA interaction site; other site 657319004976 metal binding site 3; metal-binding site 657319004977 metal binding site 2 [ion binding]; metal-binding site 657319004978 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 657319004979 putative DNA binding site [nucleotide binding]; other site 657319004980 putative metal binding site [ion binding]; other site 657319004981 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 657319004982 active site 657319004983 substrate binding site [chemical binding]; other site 657319004984 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 657319004985 active site 657319004986 DNA binding site [nucleotide binding] 657319004987 catalytic site [active] 657319004988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 657319004989 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 657319004990 Predicted membrane protein [Function unknown]; Region: COG3463 657319004991 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 657319004992 Domain of unknown function (DUF955); Region: DUF955; pfam06114 657319004993 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319004994 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 657319004995 non-specific DNA binding site [nucleotide binding]; other site 657319004996 salt bridge; other site 657319004997 sequence-specific DNA binding site [nucleotide binding]; other site 657319004998 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 657319004999 homotrimer interaction site [polypeptide binding]; other site 657319005000 putative active site [active] 657319005001 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 657319005002 active site 657319005003 homodimer interface [polypeptide binding]; other site 657319005004 catalytic site [active] 657319005005 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 657319005006 homodimer interface [polypeptide binding]; other site 657319005007 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 657319005008 active site pocket [active] 657319005009 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657319005010 TrkA-N domain; Region: TrkA_N; pfam02254 657319005011 TrkA-C domain; Region: TrkA_C; pfam02080 657319005012 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 657319005013 TrkA-N domain; Region: TrkA_N; pfam02254 657319005014 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 657319005015 Response regulator receiver domain; Region: Response_reg; pfam00072 657319005016 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 657319005017 active site 657319005018 phosphorylation site [posttranslational modification] 657319005019 intermolecular recognition site; other site 657319005020 dimerization interface [polypeptide binding]; other site 657319005021 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 657319005022 active site 657319005023 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 657319005024 pyruvate phosphate dikinase; Provisional; Region: PRK09279 657319005025 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 657319005026 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657319005027 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657319005028 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 657319005029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 657319005030 UDP-galactopyranose mutase; Region: GLF; pfam03275 657319005031 shikimate kinase; Reviewed; Region: aroK; PRK00131 657319005032 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 657319005033 ADP binding site [chemical binding]; other site 657319005034 magnesium binding site [ion binding]; other site 657319005035 putative shikimate binding site; other site 657319005036 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 657319005037 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 657319005038 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 657319005039 ATP binding site [chemical binding]; other site 657319005040 putative Mg++ binding site [ion binding]; other site 657319005041 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 657319005042 nucleotide binding region [chemical binding]; other site 657319005043 ATP-binding site [chemical binding]; other site 657319005044 TRCF domain; Region: TRCF; pfam03461 657319005045 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 657319005046 putative active site [active] 657319005047 catalytic residue [active] 657319005048 4-alpha-glucanotransferase; Provisional; Region: PRK14508 657319005049 Domain of unknown function (DUF303); Region: DUF303; pfam03629 657319005050 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 657319005051 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 657319005052 dimerization interface [polypeptide binding]; other site 657319005053 active site 657319005054 aspartate kinase; Reviewed; Region: PRK09034 657319005055 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 657319005056 nucleotide binding site [chemical binding]; other site 657319005057 substrate binding site [chemical binding]; other site 657319005058 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 657319005059 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 657319005060 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319005061 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319005062 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 657319005063 Walker A/P-loop; other site 657319005064 ATP binding site [chemical binding]; other site 657319005065 Q-loop/lid; other site 657319005066 ABC transporter signature motif; other site 657319005067 Walker B; other site 657319005068 D-loop; other site 657319005069 H-loop/switch region; other site 657319005070 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 657319005071 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319005072 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 657319005073 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 657319005074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319005075 Walker A/P-loop; other site 657319005076 ATP binding site [chemical binding]; other site 657319005077 Q-loop/lid; other site 657319005078 ABC transporter signature motif; other site 657319005079 Walker B; other site 657319005080 D-loop; other site 657319005081 H-loop/switch region; other site 657319005082 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 657319005083 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 657319005084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319005085 homodimer interface [polypeptide binding]; other site 657319005086 catalytic residue [active] 657319005087 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319005088 Tic20-like protein; Region: Tic20; pfam09685 657319005089 aspartate ammonia-lyase; Provisional; Region: PRK13353 657319005090 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 657319005091 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 657319005092 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 657319005093 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 657319005094 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 657319005095 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 657319005096 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657319005097 Walker A/P-loop; other site 657319005098 ATP binding site [chemical binding]; other site 657319005099 Q-loop/lid; other site 657319005100 ABC transporter signature motif; other site 657319005101 Walker B; other site 657319005102 D-loop; other site 657319005103 H-loop/switch region; other site 657319005104 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 657319005105 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 657319005106 RNA binding site [nucleotide binding]; other site 657319005107 active site 657319005108 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 657319005109 DHH family; Region: DHH; pfam01368 657319005110 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 657319005111 translation initiation factor IF-2; Region: IF-2; TIGR00487 657319005112 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 657319005113 G1 box; other site 657319005114 putative GEF interaction site [polypeptide binding]; other site 657319005115 GTP/Mg2+ binding site [chemical binding]; other site 657319005116 Switch I region; other site 657319005117 G2 box; other site 657319005118 G3 box; other site 657319005119 Switch II region; other site 657319005120 G4 box; other site 657319005121 G5 box; other site 657319005122 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 657319005123 Translation-initiation factor 2; Region: IF-2; pfam11987 657319005124 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 657319005125 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 657319005126 transcription termination factor NusA; Region: NusA; TIGR01953 657319005127 NusA N-terminal domain; Region: NusA_N; pfam08529 657319005128 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 657319005129 RNA binding site [nucleotide binding]; other site 657319005130 homodimer interface [polypeptide binding]; other site 657319005131 NusA-like KH domain; Region: KH_5; pfam13184 657319005132 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 657319005133 G-X-X-G motif; other site 657319005134 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 657319005135 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 657319005136 putative active site [active] 657319005137 heme pocket [chemical binding]; other site 657319005138 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319005139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319005140 metal binding site [ion binding]; metal-binding site 657319005141 active site 657319005142 I-site; other site 657319005143 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 657319005144 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 657319005145 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 657319005146 Transglycosylase; Region: Transgly; pfam00912 657319005147 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 657319005148 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 657319005149 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319005150 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319005151 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005152 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005153 Interdomain contacts; other site 657319005154 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005155 Interdomain contacts; other site 657319005156 Cytokine receptor motif; other site 657319005157 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 657319005158 Phosphotransferase enzyme family; Region: APH; pfam01636 657319005159 active site 657319005160 substrate binding site [chemical binding]; other site 657319005161 ATP binding site [chemical binding]; other site 657319005162 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 657319005163 putative active site [active] 657319005164 dimerization interface [polypeptide binding]; other site 657319005165 putative tRNAtyr binding site [nucleotide binding]; other site 657319005166 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 657319005167 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 657319005168 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 657319005169 Walker A motif; other site 657319005170 ATP binding site [chemical binding]; other site 657319005171 Walker B motif; other site 657319005172 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 657319005173 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 657319005174 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 657319005175 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 657319005176 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 657319005177 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 657319005178 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 657319005179 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 657319005180 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 657319005181 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 657319005182 active site 657319005183 cytidylate kinase; Provisional; Region: cmk; PRK00023 657319005184 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 657319005185 CMP-binding site; other site 657319005186 The sites determining sugar specificity; other site 657319005187 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 657319005188 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 657319005189 putative acyl-acceptor binding pocket; other site 657319005190 Predicted membrane protein [Function unknown]; Region: COG2855 657319005191 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 657319005192 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 657319005193 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 657319005194 protein binding site [polypeptide binding]; other site 657319005195 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319005196 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 657319005197 ATP binding site [chemical binding]; other site 657319005198 Mg2+ binding site [ion binding]; other site 657319005199 G-X-G motif; other site 657319005200 A new structural DNA glycosylase; Region: AlkD_like; cd06561 657319005201 active site 657319005202 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 657319005203 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 657319005204 DNA binding site [nucleotide binding] 657319005205 active site 657319005206 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 657319005207 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 657319005208 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 657319005209 SCP-2 sterol transfer family; Region: SCP2; cl01225 657319005210 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 657319005211 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 657319005212 active site 657319005213 tetramer interface; other site 657319005214 Abi-like protein; Region: Abi_2; pfam07751 657319005215 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 657319005216 Part of AAA domain; Region: AAA_19; pfam13245 657319005217 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657319005218 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 657319005219 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 657319005220 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 657319005221 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 657319005222 dimer interface [polypeptide binding]; other site 657319005223 PYR/PP interface [polypeptide binding]; other site 657319005224 TPP binding site [chemical binding]; other site 657319005225 substrate binding site [chemical binding]; other site 657319005226 Transcriptional regulator; Region: Transcrip_reg; cl00361 657319005227 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 657319005228 TPP-binding site; other site 657319005229 4Fe-4S binding domain; Region: Fer4; pfam00037 657319005230 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 657319005231 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 657319005232 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 657319005233 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 657319005234 putative active site; other site 657319005235 catalytic triad [active] 657319005236 putative dimer interface [polypeptide binding]; other site 657319005237 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 657319005238 TfoX N-terminal domain; Region: TfoX_N; cl17592 657319005239 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 657319005240 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 657319005241 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 657319005242 DNA binding residues [nucleotide binding] 657319005243 dimer interface [polypeptide binding]; other site 657319005244 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 657319005245 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 657319005246 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 657319005247 propionate/acetate kinase; Provisional; Region: PRK12379 657319005248 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 657319005249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 657319005250 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 657319005251 putative active site [active] 657319005252 Clostripain family; Region: Peptidase_C11; pfam03415 657319005253 Clostripain family; Region: Peptidase_C11; pfam03415 657319005254 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 657319005255 Rubredoxin; Region: Rubredoxin; pfam00301 657319005256 iron binding site [ion binding]; other site 657319005257 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 657319005258 Rubrerythrin [Energy production and conversion]; Region: COG1592 657319005259 diiron binding motif [ion binding]; other site 657319005260 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005261 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005262 Interdomain contacts; other site 657319005263 Cytokine receptor motif; other site 657319005264 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005265 Interdomain contacts; other site 657319005266 Cytokine receptor motif; other site 657319005267 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005268 Interdomain contacts; other site 657319005269 Cytokine receptor motif; other site 657319005270 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005271 Interdomain contacts; other site 657319005272 Cytokine receptor motif; other site 657319005273 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 657319005274 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 657319005275 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 657319005276 HIGH motif; other site 657319005277 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657319005278 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657319005279 active site 657319005280 KMSKS motif; other site 657319005281 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 657319005282 tRNA binding surface [nucleotide binding]; other site 657319005283 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 657319005284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 657319005285 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 657319005286 dimer interface [polypeptide binding]; other site 657319005287 phosphorylation site [posttranslational modification] 657319005288 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 657319005289 ATP binding site [chemical binding]; other site 657319005290 Mg2+ binding site [ion binding]; other site 657319005291 G-X-G motif; other site 657319005292 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 657319005293 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657319005294 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 657319005295 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 657319005296 PrgI family protein; Region: PrgI; pfam12666 657319005297 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 657319005298 DNA topoisomerase III; Provisional; Region: PRK07726 657319005299 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 657319005300 active site 657319005301 putative interdomain interaction site [polypeptide binding]; other site 657319005302 putative metal-binding site [ion binding]; other site 657319005303 putative nucleotide binding site [chemical binding]; other site 657319005304 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; cl11986 657319005305 domain I; other site 657319005306 DNA binding groove [nucleotide binding] 657319005307 phosphate binding site [ion binding]; other site 657319005308 domain II; other site 657319005309 domain III; other site 657319005310 nucleotide binding site [chemical binding]; other site 657319005311 catalytic site [active] 657319005312 domain IV; other site 657319005313 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657319005314 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 657319005315 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 657319005316 CHC2 zinc finger; Region: zf-CHC2; cl17510 657319005317 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 657319005318 active site 657319005319 metal binding site [ion binding]; metal-binding site 657319005320 interdomain interaction site; other site 657319005321 Helix-turn-helix domain; Region: HTH_36; pfam13730 657319005322 Helix-turn-helix domain; Region: HTH_36; pfam13730 657319005323 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 657319005324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319005325 Walker A/P-loop; other site 657319005326 ATP binding site [chemical binding]; other site 657319005327 Q-loop/lid; other site 657319005328 ABC transporter signature motif; other site 657319005329 Walker B; other site 657319005330 D-loop; other site 657319005331 H-loop/switch region; other site 657319005332 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 657319005333 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 657319005334 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 657319005335 putative active site [active] 657319005336 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 657319005337 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 657319005338 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 657319005339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 657319005340 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 657319005341 domain_subunit interface; other site 657319005342 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 657319005343 ANTAR domain; Region: ANTAR; pfam03861 657319005344 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 657319005345 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 657319005346 putative active site [active] 657319005347 metal binding site [ion binding]; metal-binding site 657319005348 Flagellin N-methylase; Region: FliB; pfam03692 657319005349 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657319005350 flagellin; Provisional; Region: PRK12806 657319005351 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 657319005352 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 657319005353 putative active site [active] 657319005354 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 657319005355 Peptidase family M23; Region: Peptidase_M23; pfam01551 657319005356 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 657319005357 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 657319005358 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 657319005359 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657319005360 active site 657319005361 HIGH motif; other site 657319005362 nucleotide binding site [chemical binding]; other site 657319005363 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 657319005364 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 657319005365 active site 657319005366 KMSKS motif; other site 657319005367 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 657319005368 tRNA binding surface [nucleotide binding]; other site 657319005369 anticodon binding site; other site 657319005370 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 657319005371 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 657319005372 Domain of unknown function (DUF814); Region: DUF814; pfam05670 657319005373 Uncharacterized conserved protein [Function unknown]; Region: COG0327 657319005374 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 657319005375 Family of unknown function (DUF633); Region: DUF633; pfam04816 657319005376 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 657319005377 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 657319005378 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 657319005379 dimer interface [polypeptide binding]; other site 657319005380 anticodon binding site; other site 657319005381 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 657319005382 homodimer interface [polypeptide binding]; other site 657319005383 motif 1; other site 657319005384 active site 657319005385 motif 2; other site 657319005386 GAD domain; Region: GAD; pfam02938 657319005387 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 657319005388 active site 657319005389 motif 3; other site 657319005390 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 657319005391 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 657319005392 GatB domain; Region: GatB_Yqey; smart00845 657319005393 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 657319005394 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 657319005395 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 657319005396 Predicted transcriptional regulators [Transcription]; Region: COG1725 657319005397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 657319005398 DNA-binding site [nucleotide binding]; DNA binding site 657319005399 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 657319005400 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 657319005401 Walker A/P-loop; other site 657319005402 ATP binding site [chemical binding]; other site 657319005403 Q-loop/lid; other site 657319005404 ABC transporter signature motif; other site 657319005405 Walker B; other site 657319005406 D-loop; other site 657319005407 H-loop/switch region; other site 657319005408 FtsX-like permease family; Region: FtsX; pfam02687 657319005409 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657319005410 FtsX-like permease family; Region: FtsX; pfam02687 657319005411 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319005412 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319005413 Walker A/P-loop; other site 657319005414 ATP binding site [chemical binding]; other site 657319005415 Q-loop/lid; other site 657319005416 ABC transporter signature motif; other site 657319005417 Walker B; other site 657319005418 D-loop; other site 657319005419 H-loop/switch region; other site 657319005420 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657319005421 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657319005422 ABC transporter; Region: ABC_tran; pfam00005 657319005423 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 657319005424 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 657319005425 active site 657319005426 metal binding site [ion binding]; metal-binding site 657319005427 YibE/F-like protein; Region: YibE_F; pfam07907 657319005428 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657319005429 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 657319005430 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 657319005431 CotJB protein; Region: CotJB; pfam12652 657319005432 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 657319005433 TM2 domain; Region: TM2; cl00984 657319005434 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 657319005435 CoenzymeA binding site [chemical binding]; other site 657319005436 subunit interaction site [polypeptide binding]; other site 657319005437 PHB binding site; other site 657319005438 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 657319005439 substrate binding site [chemical binding]; other site 657319005440 multimerization interface [polypeptide binding]; other site 657319005441 ATP binding site [chemical binding]; other site 657319005442 Predicted permeases [General function prediction only]; Region: COG0679 657319005443 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 657319005444 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 657319005445 ATP binding site [chemical binding]; other site 657319005446 Mg2+ binding site [ion binding]; other site 657319005447 G-X-G motif; other site 657319005448 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 657319005449 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 657319005450 intermolecular recognition site; other site 657319005451 active site 657319005452 dimerization interface [polypeptide binding]; other site 657319005453 LytTr DNA-binding domain; Region: LytTR; pfam04397 657319005454 WYL domain; Region: WYL; pfam13280 657319005455 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 657319005456 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 657319005457 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 657319005458 AAA domain; Region: AAA_14; pfam13173 657319005459 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 657319005460 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 657319005461 putative catalytic cysteine [active] 657319005462 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 657319005463 putative active site [active] 657319005464 metal binding site [ion binding]; metal-binding site 657319005465 CAAX protease self-immunity; Region: Abi; pfam02517 657319005466 CAAX protease self-immunity; Region: Abi; pfam02517 657319005467 spermidine synthase; Provisional; Region: PRK00811 657319005468 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 657319005469 S-adenosylmethionine binding site [chemical binding]; other site 657319005470 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 657319005471 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 657319005472 homodimer interface [polypeptide binding]; other site 657319005473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319005474 catalytic residue [active] 657319005475 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 657319005476 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 657319005477 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 657319005478 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 657319005479 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 657319005480 substrate binding site; other site 657319005481 dimer interface; other site 657319005482 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 657319005483 homotrimer interaction site [polypeptide binding]; other site 657319005484 zinc binding site [ion binding]; other site 657319005485 CDP-binding sites; other site 657319005486 Chorismate mutase type II; Region: CM_2; smart00830 657319005487 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 657319005488 Prephenate dehydratase; Region: PDT; pfam00800 657319005489 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 657319005490 putative L-Phe binding site [chemical binding]; other site 657319005491 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 657319005492 Catalytic domain of Protein Kinases; Region: PKc; cd00180 657319005493 active site 657319005494 ATP binding site [chemical binding]; other site 657319005495 substrate binding site [chemical binding]; other site 657319005496 activation loop (A-loop); other site 657319005497 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 657319005498 PASTA domain; Region: PASTA; smart00740 657319005499 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 657319005500 FtsX-like permease family; Region: FtsX; pfam02687 657319005501 FtsX-like permease family; Region: FtsX; pfam02687 657319005502 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319005503 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319005504 Walker A/P-loop; other site 657319005505 ATP binding site [chemical binding]; other site 657319005506 Q-loop/lid; other site 657319005507 ABC transporter signature motif; other site 657319005508 Walker B; other site 657319005509 D-loop; other site 657319005510 H-loop/switch region; other site 657319005511 flavoprotein, HI0933 family; Region: TIGR00275 657319005512 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 657319005513 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 657319005514 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 657319005515 putative active site [active] 657319005516 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 657319005517 active site 657319005518 homodimer interface [polypeptide binding]; other site 657319005519 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 657319005520 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 657319005521 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 657319005522 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 657319005523 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 657319005524 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 657319005525 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 657319005526 S-adenosylmethionine binding site [chemical binding]; other site 657319005527 Predicted methyltransferases [General function prediction only]; Region: COG0313 657319005528 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 657319005529 putative SAM binding site [chemical binding]; other site 657319005530 putative homodimer interface [polypeptide binding]; other site 657319005531 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 657319005532 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 657319005533 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 657319005534 FeS/SAM binding site; other site 657319005535 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 657319005536 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 657319005537 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 657319005538 active site 657319005539 DinB superfamily; Region: DinB_2; pfam12867 657319005540 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 657319005541 dimer interface [polypeptide binding]; other site 657319005542 conserved gate region; other site 657319005543 ABC-ATPase subunit interface; other site 657319005544 Yip1 domain; Region: Yip1; pfam04893 657319005545 Tetratricopeptide repeat; Region: TPR_16; pfam13432 657319005546 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 657319005547 TPR motif; other site 657319005548 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 657319005549 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 657319005550 dimer interface [polypeptide binding]; other site 657319005551 conserved gate region; other site 657319005552 putative PBP binding loops; other site 657319005553 ABC-ATPase subunit interface; other site 657319005554 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319005555 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319005556 Walker A/P-loop; other site 657319005557 ATP binding site [chemical binding]; other site 657319005558 Q-loop/lid; other site 657319005559 ABC transporter signature motif; other site 657319005560 Walker B; other site 657319005561 D-loop; other site 657319005562 H-loop/switch region; other site 657319005563 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 657319005564 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 657319005565 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 657319005566 Walker A/P-loop; other site 657319005567 ATP binding site [chemical binding]; other site 657319005568 Q-loop/lid; other site 657319005569 ABC transporter signature motif; other site 657319005570 Walker B; other site 657319005571 D-loop; other site 657319005572 H-loop/switch region; other site 657319005573 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 657319005574 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319005575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319005576 Walker A/P-loop; other site 657319005577 Walker A/P-loop; other site 657319005578 ATP binding site [chemical binding]; other site 657319005579 ATP binding site [chemical binding]; other site 657319005580 Q-loop/lid; other site 657319005581 ABC transporter signature motif; other site 657319005582 Walker B; other site 657319005583 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657319005584 D-loop; other site 657319005585 H-loop/switch region; other site 657319005586 ABC transporter; Region: ABC_tran_2; pfam12848 657319005587 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 657319005588 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 657319005589 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 657319005590 putative tRNA-binding site [nucleotide binding]; other site 657319005591 B3/4 domain; Region: B3_4; pfam03483 657319005592 tRNA synthetase B5 domain; Region: B5; smart00874 657319005593 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 657319005594 dimer interface [polypeptide binding]; other site 657319005595 motif 1; other site 657319005596 motif 3; other site 657319005597 motif 2; other site 657319005598 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 657319005599 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 657319005600 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 657319005601 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 657319005602 dimer interface [polypeptide binding]; other site 657319005603 motif 1; other site 657319005604 active site 657319005605 motif 2; other site 657319005606 motif 3; other site 657319005607 putative carbohydrate kinase; Provisional; Region: PRK10565 657319005608 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 657319005609 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 657319005610 putative substrate binding site [chemical binding]; other site 657319005611 putative ATP binding site [chemical binding]; other site 657319005612 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 657319005613 Domain of unknown function DUF20; Region: UPF0118; pfam01594 657319005614 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 657319005615 Melibiase; Region: Melibiase; pfam02065 657319005616 Predicted transcriptional regulator [Transcription]; Region: COG2378 657319005617 WYL domain; Region: WYL; pfam13280 657319005618 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 657319005619 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 657319005620 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 657319005621 stage II sporulation protein D; Region: spore_II_D; TIGR02870 657319005622 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 657319005623 dimer interface [polypeptide binding]; other site 657319005624 Citrate synthase; Region: Citrate_synt; pfam00285 657319005625 active site 657319005626 citrylCoA binding site [chemical binding]; other site 657319005627 oxalacetate/citrate binding site [chemical binding]; other site 657319005628 coenzyme A binding site [chemical binding]; other site 657319005629 catalytic triad [active] 657319005630 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 657319005631 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 657319005632 active site 657319005633 phosphorylation site [posttranslational modification] 657319005634 intermolecular recognition site; other site 657319005635 dimerization interface [polypeptide binding]; other site 657319005636 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 657319005637 DNA binding site [nucleotide binding] 657319005638 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 657319005639 recombinase A; Provisional; Region: recA; PRK09354 657319005640 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 657319005641 hexamer interface [polypeptide binding]; other site 657319005642 Walker A motif; other site 657319005643 ATP binding site [chemical binding]; other site 657319005644 Walker B motif; other site 657319005645 recombination regulator RecX; Reviewed; Region: recX; PRK00117 657319005646 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 657319005647 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 657319005648 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 657319005649 FeS/SAM binding site; other site 657319005650 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 657319005651 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 657319005652 Na2 binding site [ion binding]; other site 657319005653 putative substrate binding site 1 [chemical binding]; other site 657319005654 Na binding site 1 [ion binding]; other site 657319005655 putative substrate binding site 2 [chemical binding]; other site 657319005656 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 657319005657 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 657319005658 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 657319005659 GTP/Mg2+ binding site [chemical binding]; other site 657319005660 G5 box; other site 657319005661 trmE is a tRNA modification GTPase; Region: trmE; cd04164 657319005662 G1 box; other site 657319005663 G1 box; other site 657319005664 GTP/Mg2+ binding site [chemical binding]; other site 657319005665 Switch I region; other site 657319005666 Switch I region; other site 657319005667 G2 box; other site 657319005668 G2 box; other site 657319005669 Switch II region; other site 657319005670 G3 box; other site 657319005671 G4 box; other site 657319005672 G5 box; other site 657319005673 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 657319005674 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 657319005675 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 657319005676 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 657319005677 nucleotide binding region [chemical binding]; other site 657319005678 ATP-binding site [chemical binding]; other site 657319005679 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 657319005680 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005681 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005682 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005683 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005684 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005685 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319005686 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 657319005687 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 657319005688 Carbohydrate binding domain (family 11); Region: CBM_11; pfam03425 657319005689 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 657319005690 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005691 Interdomain contacts; other site 657319005692 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319005693 Interdomain contacts; other site 657319005694 alpha-galactosidase; Region: PLN02808; cl17638 657319005695 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 657319005696 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 657319005697 ligand binding site [chemical binding]; other site 657319005698 active site 657319005699 UGI interface [polypeptide binding]; other site 657319005700 catalytic site [active] 657319005701 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 657319005702 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 657319005703 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 657319005704 minor groove reading motif; other site 657319005705 helix-hairpin-helix signature motif; other site 657319005706 active site 657319005707 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 657319005708 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 657319005709 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 657319005710 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 657319005711 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 657319005712 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 657319005713 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 657319005714 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 657319005715 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657319005716 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 657319005717 beta subunit interaction interface [polypeptide binding]; other site 657319005718 Walker A motif; other site 657319005719 ATP binding site [chemical binding]; other site 657319005720 Walker B motif; other site 657319005721 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657319005722 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 657319005723 core domain interface [polypeptide binding]; other site 657319005724 delta subunit interface [polypeptide binding]; other site 657319005725 epsilon subunit interface [polypeptide binding]; other site 657319005726 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 657319005727 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657319005728 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 657319005729 alpha subunit interaction interface [polypeptide binding]; other site 657319005730 Walker A motif; other site 657319005731 ATP binding site [chemical binding]; other site 657319005732 Walker B motif; other site 657319005733 inhibitor binding site; inhibition site 657319005734 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 657319005735 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 657319005736 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 657319005737 gamma subunit interface [polypeptide binding]; other site 657319005738 epsilon subunit interface [polypeptide binding]; other site 657319005739 LBP interface [polypeptide binding]; other site 657319005740 Transcriptional regulator; Region: Rrf2; cl17282 657319005741 Rrf2 family protein; Region: rrf2_super; TIGR00738 657319005742 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 657319005743 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 657319005744 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 657319005745 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 657319005746 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_2; cd04602 657319005747 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 657319005748 active site 657319005749 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 657319005750 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 657319005751 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 657319005752 Soluble P-type ATPase [General function prediction only]; Region: COG4087 657319005753 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 657319005754 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 657319005755 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 657319005756 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 657319005757 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 657319005758 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 657319005759 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 657319005760 dimerization domain swap beta strand [polypeptide binding]; other site 657319005761 regulatory protein interface [polypeptide binding]; other site 657319005762 active site 657319005763 regulatory phosphorylation site [posttranslational modification]; other site 657319005764 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 657319005765 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 657319005766 active site 657319005767 phosphorylation site [posttranslational modification] 657319005768 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 657319005769 active site 657319005770 P-loop; other site 657319005771 phosphorylation site [posttranslational modification] 657319005772 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 657319005773 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 657319005774 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 657319005775 putative substrate binding site [chemical binding]; other site 657319005776 putative ATP binding site [chemical binding]; other site 657319005777 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 657319005778 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 657319005779 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 657319005780 Fic family protein [Function unknown]; Region: COG3177 657319005781 Fic/DOC family; Region: Fic; pfam02661 657319005782 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 657319005783 metal ion-dependent adhesion site (MIDAS); other site 657319005784 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 657319005785 putative ADP-ribose binding site [chemical binding]; other site 657319005786 putative active site [active] 657319005787 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 657319005788 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 657319005789 active site 657319005790 catalytic tetrad [active] 657319005791 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657319005792 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 657319005793 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 657319005794 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 657319005795 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 657319005796 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319005797 Walker A/P-loop; other site 657319005798 ATP binding site [chemical binding]; other site 657319005799 Q-loop/lid; other site 657319005800 ABC transporter signature motif; other site 657319005801 Walker B; other site 657319005802 D-loop; other site 657319005803 H-loop/switch region; other site 657319005804 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 657319005805 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 657319005806 active site 1 [active] 657319005807 active site 2 [active] 657319005808 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 657319005809 active site 2 [active] 657319005810 seryl-tRNA synthetase; Provisional; Region: PRK05431 657319005811 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 657319005812 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 657319005813 motif 1; other site 657319005814 dimer interface [polypeptide binding]; other site 657319005815 active site 657319005816 motif 2; other site 657319005817 motif 3; other site 657319005818 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 657319005819 ParB-like nuclease domain; Region: ParBc; pfam02195 657319005820 KorB domain; Region: KorB; pfam08535 657319005821 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657319005822 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 657319005823 P-loop; other site 657319005824 Magnesium ion binding site [ion binding]; other site 657319005825 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 657319005826 Magnesium ion binding site [ion binding]; other site 657319005827 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 657319005828 ParB-like nuclease domain; Region: ParBc; pfam02195 657319005829 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 657319005830 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 657319005831 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 657319005832 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 657319005833 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 657319005834 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 657319005835 DNA gyrase subunit A; Validated; Region: PRK05560 657319005836 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 657319005837 CAP-like domain; other site 657319005838 active site 657319005839 primary dimer interface [polypeptide binding]; other site 657319005840 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657319005841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657319005842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657319005843 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657319005844 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657319005845 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 657319005846 YcxB-like protein; Region: YcxB; pfam14317 657319005847 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 657319005848 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 657319005849 Mg2+ binding site [ion binding]; other site 657319005850 G-X-G motif; other site 657319005851 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 657319005852 anchoring element; other site 657319005853 dimer interface [polypeptide binding]; other site 657319005854 ATP binding site [chemical binding]; other site 657319005855 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 657319005856 active site 657319005857 putative metal-binding site [ion binding]; other site 657319005858 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 657319005859 recombination protein F; Reviewed; Region: recF; PRK00064 657319005860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319005861 Walker A/P-loop; other site 657319005862 ATP binding site [chemical binding]; other site 657319005863 Q-loop/lid; other site 657319005864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 657319005865 ABC transporter signature motif; other site 657319005866 Walker B; other site 657319005867 D-loop; other site 657319005868 H-loop/switch region; other site 657319005869 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 657319005870 RNA binding surface [nucleotide binding]; other site 657319005871 DNA polymerase III subunit beta; Validated; Region: PRK05643 657319005872 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 657319005873 putative DNA binding surface [nucleotide binding]; other site 657319005874 dimer interface [polypeptide binding]; other site 657319005875 beta-clamp/clamp loader binding surface; other site 657319005876 beta-clamp/translesion DNA polymerase binding surface; other site 657319005877 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 657319005878 DnaA N-terminal domain; Region: DnaA_N; pfam11638 657319005879 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 657319005880 Walker A motif; other site 657319005881 ATP binding site [chemical binding]; other site 657319005882 Walker B motif; other site 657319005883 arginine finger; other site 657319005884 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 657319005885 DnaA box-binding interface [nucleotide binding]; other site 657319005886 pyruvate kinase; Provisional; Region: PRK06354 657319005887 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 657319005888 domain interfaces; other site 657319005889 active site 657319005890 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 657319005891 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 657319005892 putative metal binding residues [ion binding]; other site 657319005893 signature motif; other site 657319005894 dimer interface [polypeptide binding]; other site 657319005895 active site 657319005896 polyP binding site; other site 657319005897 substrate binding site [chemical binding]; other site 657319005898 acceptor-phosphate pocket; other site 657319005899 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 657319005900 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 657319005901 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 657319005902 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 657319005903 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 657319005904 active site 657319005905 HIGH motif; other site 657319005906 dimer interface [polypeptide binding]; other site 657319005907 KMSKS motif; other site 657319005908 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 657319005909 RNA binding surface [nucleotide binding]; other site 657319005910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 657319005911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 657319005912 Coenzyme A binding pocket [chemical binding]; other site 657319005913 antitoxin MqsA for MqsR toxin; Region: MqsA; cl15819 657319005914 toxin interface [polypeptide binding]; other site 657319005915 Zn binding site [ion binding]; other site 657319005916 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 657319005917 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 657319005918 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 657319005919 Ligand Binding Site [chemical binding]; other site 657319005920 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 657319005921 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 657319005922 homodimer interface [polypeptide binding]; other site 657319005923 substrate-cofactor binding pocket; other site 657319005924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319005925 catalytic residue [active] 657319005926 Flagellar protein FliS; Region: FliS; cl00654 657319005927 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 657319005928 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 657319005929 Global regulator protein family; Region: CsrA; pfam02599 657319005930 FliW protein; Region: FliW; cl00740 657319005931 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 657319005932 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 657319005933 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 657319005934 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 657319005935 FlgN protein; Region: FlgN; pfam05130 657319005936 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 657319005937 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 657319005938 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 657319005939 homodimer interface [polypeptide binding]; other site 657319005940 active site 657319005941 FMN binding site [chemical binding]; other site 657319005942 substrate binding site [chemical binding]; other site 657319005943 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 657319005944 phenylhydantoinase; Validated; Region: PRK08323 657319005945 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 657319005946 tetramer interface [polypeptide binding]; other site 657319005947 active site 657319005948 hypothetical protein; Provisional; Region: PRK06062 657319005949 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 657319005950 inhibitor-cofactor binding pocket; inhibition site 657319005951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319005952 catalytic residue [active] 657319005953 Uncharacterized conserved protein [Function unknown]; Region: COG1683 657319005954 NMT1/THI5 like; Region: NMT1; pfam09084 657319005955 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 657319005956 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 657319005957 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 657319005958 dimer interface [polypeptide binding]; other site 657319005959 conserved gate region; other site 657319005960 putative PBP binding loops; other site 657319005961 ABC-ATPase subunit interface; other site 657319005962 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 657319005963 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 657319005964 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 657319005965 6-phosphofructokinase; Provisional; Region: PRK14072 657319005966 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 657319005967 active site 657319005968 ADP/pyrophosphate binding site [chemical binding]; other site 657319005969 dimerization interface [polypeptide binding]; other site 657319005970 allosteric effector site; other site 657319005971 fructose-1,6-bisphosphate binding site; other site 657319005972 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 657319005973 active site 657319005974 catalytic triad [active] 657319005975 oxyanion hole [active] 657319005976 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 657319005977 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 657319005978 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 657319005979 dimer interface [polypeptide binding]; other site 657319005980 putative CheW interface [polypeptide binding]; other site 657319005981 RmuC family; Region: RmuC; pfam02646 657319005982 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319005983 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 657319005984 non-specific DNA binding site [nucleotide binding]; other site 657319005985 salt bridge; other site 657319005986 sequence-specific DNA binding site [nucleotide binding]; other site 657319005987 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 657319005988 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319005989 Double zinc ribbon; Region: DZR; pfam12773 657319005990 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 657319005991 Double zinc ribbon; Region: DZR; pfam12773 657319005992 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 657319005993 TIR domain; Region: TIR_2; pfam13676 657319005994 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 657319005995 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 657319005996 binding surface 657319005997 TPR motif; other site 657319005998 AAA domain; Region: AAA_14; pfam13173 657319005999 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 657319006000 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 657319006001 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 657319006002 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 657319006003 catalytic residue [active] 657319006004 EDD domain protein, DegV family; Region: DegV; TIGR00762 657319006005 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 657319006006 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 657319006007 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 657319006008 fumarate hydratase; Provisional; Region: PRK06246 657319006009 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 657319006010 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 657319006011 active site 657319006012 shikimate kinase; Reviewed; Region: aroK; PRK00131 657319006013 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 657319006014 ADP binding site [chemical binding]; other site 657319006015 magnesium binding site [ion binding]; other site 657319006016 putative shikimate binding site; other site 657319006017 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 657319006018 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 657319006019 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 657319006020 shikimate binding site; other site 657319006021 NAD(P) binding site [chemical binding]; other site 657319006022 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 657319006023 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 657319006024 active site 657319006025 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 657319006026 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 657319006027 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 657319006028 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 657319006029 dimer interface [polypeptide binding]; other site 657319006030 active site 657319006031 CoA binding pocket [chemical binding]; other site 657319006032 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 657319006033 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 657319006034 FMN binding site [chemical binding]; other site 657319006035 substrate binding site [chemical binding]; other site 657319006036 putative catalytic residue [active] 657319006037 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 657319006038 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 657319006039 NAD(P) binding site [chemical binding]; other site 657319006040 homotetramer interface [polypeptide binding]; other site 657319006041 homodimer interface [polypeptide binding]; other site 657319006042 active site 657319006043 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 657319006044 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 657319006045 dimer interface [polypeptide binding]; other site 657319006046 active site 657319006047 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 657319006048 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 657319006049 carboxyltransferase (CT) interaction site; other site 657319006050 biotinylation site [posttranslational modification]; other site 657319006051 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 657319006052 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 657319006053 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 657319006054 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 657319006055 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 657319006056 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 657319006057 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 657319006058 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 657319006059 acyl carrier protein; Provisional; Region: acpP; PRK00982 657319006060 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 657319006061 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 657319006062 Putative glycosyl hydrolase domain; Region: DUF4015; cl17870 657319006063 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 657319006064 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 657319006065 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 657319006066 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 657319006067 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 657319006068 substrate binding site [chemical binding]; other site 657319006069 hexamer interface [polypeptide binding]; other site 657319006070 metal binding site [ion binding]; metal-binding site 657319006071 recombination protein RecR; Reviewed; Region: recR; PRK00076 657319006072 RecR protein; Region: RecR; pfam02132 657319006073 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 657319006074 putative active site [active] 657319006075 putative metal-binding site [ion binding]; other site 657319006076 tetramer interface [polypeptide binding]; other site 657319006077 hypothetical protein; Validated; Region: PRK00153 657319006078 allantoate amidohydrolase; Reviewed; Region: PRK09290 657319006079 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 657319006080 active site 657319006081 metal binding site [ion binding]; metal-binding site 657319006082 dimer interface [polypeptide binding]; other site 657319006083 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 657319006084 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 657319006085 dimer interface [polypeptide binding]; other site 657319006086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 657319006087 catalytic residue [active] 657319006088 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 657319006089 predicted active site [active] 657319006090 catalytic triad [active] 657319006091 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 657319006092 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 657319006093 active site 657319006094 multimer interface [polypeptide binding]; other site 657319006095 RNA polymerase sigma-F factor; Region: spore_sigF; TIGR02885 657319006096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319006097 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657319006098 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 657319006099 DNA binding residues [nucleotide binding] 657319006100 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 657319006101 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 657319006102 ATP binding site [chemical binding]; other site 657319006103 Mg2+ binding site [ion binding]; other site 657319006104 G-X-G motif; other site 657319006105 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 657319006106 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 657319006107 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 657319006108 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 657319006109 Ligand binding site; other site 657319006110 Putative Catalytic site; other site 657319006111 DXD motif; other site 657319006112 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 657319006113 Type III pantothenate kinase; Region: Pan_kinase; cl17198 657319006114 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; cl17491 657319006115 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 657319006116 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 657319006117 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 657319006118 active site 657319006119 HIGH motif; other site 657319006120 nucleotide binding site [chemical binding]; other site 657319006121 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 657319006122 active site 657319006123 KMSKS motif; other site 657319006124 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 657319006125 Protein of unknown function (DUF342); Region: DUF342; pfam03961 657319006126 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 657319006127 CheC-like family; Region: CheC; pfam04509 657319006128 CheC-like family; Region: CheC; pfam04509 657319006129 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 657319006130 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657319006131 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 657319006132 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 657319006133 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319006134 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 657319006135 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 657319006136 DNA binding residues [nucleotide binding] 657319006137 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 657319006138 FHIPEP family; Region: FHIPEP; pfam00771 657319006139 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 657319006140 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 657319006141 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 657319006142 Response regulator receiver domain; Region: Response_reg; pfam00072 657319006143 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 657319006144 active site 657319006145 phosphorylation site [posttranslational modification] 657319006146 intermolecular recognition site; other site 657319006147 dimerization interface [polypeptide binding]; other site 657319006148 flagellar motor switch protein; Validated; Region: PRK08119 657319006149 CheC-like family; Region: CheC; pfam04509 657319006150 CheC-like family; Region: CheC; pfam04509 657319006151 flagellar motor switch protein FliN; Region: fliN; TIGR02480 657319006152 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 657319006153 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 657319006154 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 657319006155 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 657319006156 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 657319006157 ligand binding site [chemical binding]; other site 657319006158 Flagellar protein (FlbD); Region: FlbD; pfam06289 657319006159 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657319006160 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 657319006161 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 657319006162 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 657319006163 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 657319006164 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 657319006165 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 657319006166 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 657319006167 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 657319006168 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 657319006169 Walker A motif/ATP binding site; other site 657319006170 Walker B motif; other site 657319006171 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 657319006172 FliG C-terminal domain; Region: FliG_C; pfam01706 657319006173 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 657319006174 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 657319006175 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 657319006176 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 657319006177 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 657319006178 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 657319006179 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 657319006180 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 657319006181 dimerization interface [polypeptide binding]; other site 657319006182 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 657319006183 PAS fold; Region: PAS_3; pfam08447 657319006184 putative active site [active] 657319006185 heme pocket [chemical binding]; other site 657319006186 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 657319006187 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 657319006188 metal binding site [ion binding]; metal-binding site 657319006189 active site 657319006190 I-site; other site 657319006191 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 657319006192 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 657319006193 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319006194 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319006195 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657319006196 DNA binding residues [nucleotide binding] 657319006197 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 657319006198 NlpC/P60 family; Region: NLPC_P60; pfam00877 657319006199 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 657319006200 nudix motif; other site 657319006201 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 657319006202 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 657319006203 DHHW protein; Region: DHHW; pfam14286 657319006204 DHHW protein; Region: DHHW; pfam14286 657319006205 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 657319006206 Acid Phosphatase; Region: Acid_PPase; cl17256 657319006207 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 657319006208 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 657319006209 Domain of unknown function (DUF348); Region: DUF348; pfam03990 657319006210 Domain of unknown function (DUF348); Region: DUF348; pfam03990 657319006211 G5 domain; Region: G5; pfam07501 657319006212 3D domain; Region: 3D; cl01439 657319006213 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319006214 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 657319006215 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 657319006216 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 657319006217 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 657319006218 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 657319006219 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 657319006220 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 657319006221 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 657319006222 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 657319006223 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 657319006224 putative translocon binding site; other site 657319006225 protein-rRNA interface [nucleotide binding]; other site 657319006226 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 657319006227 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 657319006228 G-X-X-G motif; other site 657319006229 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 657319006230 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 657319006231 23S rRNA interface [nucleotide binding]; other site 657319006232 5S rRNA interface [nucleotide binding]; other site 657319006233 putative antibiotic binding site [chemical binding]; other site 657319006234 L25 interface [polypeptide binding]; other site 657319006235 L27 interface [polypeptide binding]; other site 657319006236 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 657319006237 23S rRNA interface [nucleotide binding]; other site 657319006238 putative translocon interaction site; other site 657319006239 signal recognition particle (SRP54) interaction site; other site 657319006240 L23 interface [polypeptide binding]; other site 657319006241 trigger factor interaction site; other site 657319006242 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 657319006243 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 657319006244 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 657319006245 RNA binding site [nucleotide binding]; other site 657319006246 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 657319006247 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 657319006248 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 657319006249 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 657319006250 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 657319006251 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 657319006252 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 657319006253 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657319006254 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 657319006255 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 657319006256 5S rRNA interface [nucleotide binding]; other site 657319006257 23S rRNA interface [nucleotide binding]; other site 657319006258 L5 interface [polypeptide binding]; other site 657319006259 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 657319006260 23S rRNA binding site [nucleotide binding]; other site 657319006261 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 657319006262 SecY translocase; Region: SecY; pfam00344 657319006263 adenylate kinase; Reviewed; Region: adk; PRK00279 657319006264 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 657319006265 AMP-binding site [chemical binding]; other site 657319006266 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 657319006267 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 657319006268 active site 657319006269 KOW motif of Ribosomal Protein L14; Region: KOW_RPL14; cd06088 657319006270 RNA binding site [nucleotide binding]; other site 657319006271 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 657319006272 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 657319006273 30S ribosomal protein S13; Region: bact_S13; TIGR03631 657319006274 30S ribosomal protein S11; Validated; Region: PRK05309 657319006275 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 657319006276 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 657319006277 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 657319006278 RNA binding surface [nucleotide binding]; other site 657319006279 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 657319006280 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 657319006281 alphaNTD - beta interaction site [polypeptide binding]; other site 657319006282 alphaNTD homodimer interface [polypeptide binding]; other site 657319006283 alphaNTD - beta' interaction site [polypeptide binding]; other site 657319006284 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 657319006285 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 657319006286 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 657319006287 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 657319006288 UGMP family protein; Validated; Region: PRK09604 657319006289 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 657319006290 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 657319006291 dimerization interface [polypeptide binding]; other site 657319006292 putative DNA binding site [nucleotide binding]; other site 657319006293 putative Zn2+ binding site [ion binding]; other site 657319006294 Predicted integral membrane protein [Function unknown]; Region: COG5658 657319006295 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 657319006296 SdpI/YhfL protein family; Region: SdpI; pfam13630 657319006297 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 657319006298 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 657319006299 non-specific DNA binding site [nucleotide binding]; other site 657319006300 salt bridge; other site 657319006301 sequence-specific DNA binding site [nucleotide binding]; other site 657319006302 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 657319006303 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 657319006304 putative ATP binding site [chemical binding]; other site 657319006305 putative substrate interface [chemical binding]; other site 657319006306 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 657319006307 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 657319006308 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 657319006309 DNA binding residues [nucleotide binding] 657319006310 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 657319006311 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 657319006312 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 657319006313 phosphodiesterase; Provisional; Region: PRK12704 657319006314 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 657319006315 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 657319006316 Zn2+ binding site [ion binding]; other site 657319006317 Mg2+ binding site [ion binding]; other site 657319006318 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 657319006319 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 657319006320 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 657319006321 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 657319006322 tetramer interface [polypeptide binding]; other site 657319006323 active site 657319006324 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 657319006325 Protein export membrane protein; Region: SecD_SecF; cl14618 657319006326 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 657319006327 ATP cone domain; Region: ATP-cone; pfam03477