Structure of PDB 1mfd Chain H Binding Site BS02

Receptor Information
>1mfd Chain H (length=211) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EVQVQQSGTVLARPGASVKMSCKASGYTFTNYWMHWIKQRPGQGLEWIGA
IYPGNSATFYNHKFRAKTKLTAVTSTITAYMELSSLTNEDSAVYYCTRGG
HGYYGDYWGQGASLTVSSAKTTPPSVYPLAPGMVTLGCLVKGYFPEPVTV
TWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPAS
STKVDKKIVPR
Ligand information
Ligand IDABE
InChIInChI=1S/C6H12O4/c1-3-4(7)2-5(8)6(9)10-3/h3-9H,2H2,1H3/t3-,4-,5-,6+/m1/s1
InChIKeyKYPWIZMAJMNPMJ-KAZBKCHUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0CC1C(CC(C(O1)O)O)O
OpenEye OEToolkits 1.5.0C[C@@H]1[C@@H](C[C@H]([C@H](O1)O)O)O
CACTVS 3.341C[CH]1O[CH](O)[CH](O)C[CH]1O
ACDLabs 10.04OC1C(OC(O)C(O)C1)C
CACTVS 3.341C[C@H]1O[C@H](O)[C@H](O)C[C@H]1O
FormulaC6 H12 O4
Namealpha-D-Abequopyranose;
alpha-D-Abequose;
3,6-dideoxy-alpha-D-xylo-hexopyranose;
3,6-dideoxy-alpha-D-gulopyranose;
3,6-dideoxy-alpha-D-galactopyranose;
3-deoxy-alpha-D-fucopyranose;
D-Abequose;
Abequose
ChEMBL
DrugBankDB02590
ZINC
PDB chain1mfd Chain A Residue 3 [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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PDB1mfd Solution structure of a trisaccharide-antibody complex: comparison of NMR measurements with a crystal structure.
Resolution2.1 Å
Binding residue
(original residue number in PDB)
W283 H285 G350 G352
Binding residue
(residue number reindexed from 1)
W33 H35 G100 G102
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=5.31,Kd=4.9uM
External links