Structure of PDB 6vaw Chain B Binding Site BS01

Receptor Information
>6vaw Chain B (length=232) Species: 3818 (Arachis hypogaea) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAM
PVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGS
IGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKT
VPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPE
RVKFGFSASGSLGGRQIHLIRSWSFTSTLITT
Ligand information
Ligand IDS3W
InChIInChI=1S/C20H33N5O12/c1-35-20-18(34)16(32)13(29)9(37-20)6-25-5-8(23-24-25)4-21-11(27)2-3-12(28)22-19-17(33)15(31)14(30)10(7-26)36-19/h5,9-10,13-20,26,29-34H,2-4,6-7H2,1H3,(H,21,27)(H,22,28)/t9-,10+,13-,14+,15+,16+,17-,18-,19-,20+/m1/s1
InChIKeyZVODTTTYSJJUKY-SRYZRXLVSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01n2c(CNC(CCC(NC1C(C(C(O)C(CO)O1)O)O)=O)=O)cn(n2)CC3C(O)C(C(C(OC)O3)O)O
CACTVS 3.385CO[CH]1O[CH](Cn2cc(CNC(=O)CCC(=O)N[CH]3O[CH](CO)[CH](O)[CH](O)[CH]3O)nn2)[CH](O)[CH](O)[CH]1O
CACTVS 3.385CO[C@H]1O[C@H](Cn2cc(CNC(=O)CCC(=O)N[C@@H]3O[C@@H](CO)[C@H](O)[C@H](O)[C@H]3O)nn2)[C@@H](O)[C@H](O)[C@H]1O
OpenEye OEToolkits 2.0.7CO[C@@H]1[C@@H]([C@H]([C@@H]([C@H](O1)Cn2cc(nn2)CNC(=O)CCC(=O)N[C@H]3[C@@H]([C@H]([C@H]([C@H](O3)CO)O)O)O)O)O)O
OpenEye OEToolkits 2.0.7COC1C(C(C(C(O1)Cn2cc(nn2)CNC(=O)CCC(=O)NC3C(C(C(C(O3)CO)O)O)O)O)O)O
FormulaC20 H33 N5 O12
NameN-[(2R,3R,4S,5R,6S)-3,4,5-trihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-2-yl]-N'-[(1-{[(2R,3S,4S,5R,6S)-3,4,5-trihydroxy-6-methoxytetrahydro-2H-pyran-2-yl]methyl}-1H-1,2,3-triazol-4-yl)methyl]butanediamide
ChEMBL
DrugBank
ZINC
PDB chain6vaw Chain B Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6vaw Crystal structures of peanut lectin in the presence of synthetic beta-N- and beta-S-galactosides disclose evidence for the recognition of different glycomimetic ligands.
Resolution1.75 Å
Binding residue
(original residue number in PDB)
D80 D83 G103 Y125 N127 S211
Binding residue
(residue number reindexed from 1)
D80 D83 G103 Y125 N127 S211
Annotation score1
Binding affinityMOAD: Kd=1563uM
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0030246 carbohydrate binding
GO:0046872 metal ion binding

View graph for
Molecular Function
External links
PDB RCSB:6vaw, PDBe:6vaw, PDBj:6vaw
PDBsum6vaw
PubMed33135679
UniProtP02872|LECG_ARAHY Galactose-binding lectin

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