Structure of PDB 3frk Chain B Binding Site BS01

Receptor Information
>3frk Chain B (length=364) Species: 1517 (Thermoanaerobacterium thermosaccharolyticum) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKISFASFKPMHDEIEYEIKFKFEEIYKRNWFILGDEDKKFEQEFADYCN
VNYCIGCGNGLDALHLILKGYDIGFGDEVIVPSNTFIATALAVSYTGAKP
IFVEPDIRTYNIDPSLIESAITEKTKAIIAVHLYGQPADMDEIKRIAKKY
NLKLIEDAAQAHGSLYKGMKVGSLGDAAGFSFYPAKNLGSLGDGGAVVTN
DKDLAEKIKALSNYGSEKKYHHIYKGFNSRLDELQAGFLRVKLKYLDKWN
EERRKIAQKYIAGINNPNVIIPVEADYAKHVWYTFVIRSEKRDELQKYLN
NNGIGTLIHYPIPIHLQQAYKDLGFKTGNFPIAEKIANEILSIPIWYGMK
NEEIEYVIDKINAW
Ligand information
Ligand IDTQP
InChIInChI=1S/C24H35N4O19P3/c1-10-7-28(24(34)27-22(10)33)17-4-15(29)16(45-17)9-43-49(38,39)47-50(40,41)46-23-21(32)18(20(31)12(3)44-23)26-6-14-13(8-42-48(35,36)37)5-25-11(2)19(14)30/h5-7,12,15-18,20-21,23,29-32H,4,8-9H2,1-3H3,(H,38,39)(H,40,41)(H,27,33,34)(H2,35,36,37)/b26-6+/t12-,15+,16-,17-,18+,20-,21-,23-/m1/s1
InChIKeyUJDWKFAFGYHSFM-HMSDFHDVSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0Cc1c(c(c(cn1)COP(=O)(O)O)C=NC2C(C(OC(C2O)OP(=O)(O)OP(=O)(O)OCC3C(CC(O3)N4C=C(C(=O)NC4=O)C)O)C)O)O
CACTVS 3.341C[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH](C[CH]2O)N3C=C(C)C(=O)NC3=O)[CH](O)[CH](N=Cc4c(O)c(C)ncc4CO[P](O)(O)=O)[CH]1O
OpenEye OEToolkits 1.5.0Cc1c(c(c(cn1)COP(=O)(O)O)\C=N\[C@H]2[C@@H]([C@H](O[C@@H]([C@@H]2O)O[P@](=O)(O)O[P@](=O)(O)OC[C@@H]3[C@H](C[C@@H](O3)N4C=C(C(=O)NC4=O)C)O)C)O)O
CACTVS 3.341C[C@H]1O[C@H](O[P@@](O)(=O)O[P@@](O)(=O)OC[C@H]2O[C@H](C[C@@H]2O)N3C=C(C)C(=O)NC3=O)[C@H](O)[C@@H](N=Cc4c(O)c(C)ncc4CO[P](O)(O)=O)[C@@H]1O
ACDLabs 10.04O=P(OC2OC(C(O)C(/N=C/c1c(cnc(c1O)C)COP(=O)(O)O)C2O)C)(O)OP(=O)(O)OCC4OC(N3C=C(C(=O)NC3=O)C)CC4O
FormulaC24 H35 N4 O19 P3
Name(2R,3R,4S,5S,6R)-3,5-dihydroxy-4-{[(1E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}-6-methyltetrahydro-2H-pyran-2-yl [(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)tetrahydrofuran-2-yl]methyl dihydrogen diphosphate
ChEMBL
DrugBank
ZINCZINC000098209462
PDB chain3frk Chain A Residue 374 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3frk Structural analysis of QdtB, an aminotransferase required for the biosynthesis of dTDP-3-acetamido-3,6-dideoxy-alpha-D-glucose.
Resolution2.15 Å
Binding residue
(original residue number in PDB)
W31 F32 I33 Y214 K219 N228
Binding residue
(residue number reindexed from 1)
W31 F32 I33 Y214 K219 N228
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) F86 D157 Q160 Y183 K186 Y220 R230
Catalytic site (residue number reindexed from 1) F86 D157 Q160 Y183 K186 Y220 R230
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0008483 transaminase activity
GO:0030170 pyridoxal phosphate binding
Biological Process
GO:0000271 polysaccharide biosynthetic process

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Molecular Function

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Biological Process
External links
PDB RCSB:3frk, PDBe:3frk, PDBj:3frk
PDBsum3frk
PubMed19178182
UniProtQ6TFC4

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