Structure of PDB 6xw7 Chain F Binding Site BS02

Receptor Information

>6xw7 Chain F (length=301) Species: 223997 (Murine norovirus 1)

RMVDLPVIQPRLCTHARWPAPVYGLLVDPSLPSNPQWQNGRVHVDGTLLG
TTPISGSWVSCFAAEAAYKFQSGTGEVATFTLIEQDGSAYVPGDRAAPLG
YPDFSGQLEIEVQTETTKTGDKLKVTTFEMILGPDQAPYQGRVFASVTAA
ASLDLVDGRVRAVPRSIYGFQDTIPEYNDGLLVPLAPPIGPFLPGEVLLR
FRTYMRQIDTADAAAEAIDCALPQEFVSWFASNAFTVQSEALLLRYRNTL
TGQLLFECKLYNEGYIALSYSGSGPLTFPTDGIFEVVSWVPRLYQLASVG
S

Ligand information

• Ligand ID: CHO
• InChI: InChI=1S/C26H43NO5/c1-15(4-7-22(30)27-14-23(31)32)18-5-6-19-24-20(9-11-26(18,19)3)25(2)10-8-17(28)12-16(25)13-21(24)29/h15-21,24,28-29H,4-14H2,1-3H3,(H,27,30)(H,31,32)/t15-,16+,17-,18-,19+,20+,21-,24+,25+,26-/m1/s1
• InChIKey: GHCZAUBVMUEKKP-GYPHWSFCSA-N
• SMILES:
  CACTVS 3.370: C[CH](CCC(=O)NCC(O)=O)[CH]1CC[CH]2[CH]3[CH](O)C[CH]4C[CH](O)CC[C]4(C)[CH]3CC[C]12C
  OpenEye OEToolkits 1.7.6: C[C@H](CCC(=O)NCC(=O)O)[C@H]1CC[C@@H]2[C@@]1(CC[C@H]3[C@H]2C(C[C@H]4[C@@]3(CC[C@H](C4)O)C)O)C
  OpenEye OEToolkits 1.7.6: CC(CCC(=O)NCC(=O)O)C1CCC2C1(CCC3C2C(CC4C3(CCC(C4)O)C)O)C
  ACDLabs 12.01: O=C(O)CNC(=O)CCC(C4C3(C(C1C(C2(C(CC1O)CC(O)CC2)C)CC3)CC4)C)C
  CACTVS 3.370: C[C@H](CCC(=O)NCC(O)=O)[C@H]1CC[C@H]2[C@@H]3[C@H](O)C[C@@H]4C[C@H](O)CC[C@]4(C)[C@H]3CC[C@]12C
• Formula: C26 H43 N O5
• Name: GLYCOCHENODEOXYCHOLIC ACID
• ChEMBL: CHEMBL1552
• DrugBank: DB02123
• ZINC: ZINC000003914812
• PDB chain: 6xw7 Chain F Residue 900

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6xw7 Nanobody-Mediated Neutralization Reveals an Achilles Heel for Norovirus.
• Resolution: 2.15 Å
• Binding residue (original residue number in PDB): W245 A247 Y435 R437
• Binding residue (residue number reindexed from 1): W18 A20 Y204 R206
• Annotation score: 1

External links

• PDB: RCSB:6xw7, PDBe:6xw7, PDBj:6xw7
• PDBsum: 6xw7
• PubMed: 32321816
• UniProt: Q80J94|CAPSD_MNV1 Capsid protein VP1 (Gene Name=ORF2)