Structure of PDB 6y5y Chain E Binding Site BS01

Receptor Information

>6y5y Chain E (length=281) Species: 1497391 (New Jersey polyomavirus-2013)

EVLNIITATTEIELWLEPRMGVNAPTGDRKEWYGYSEVIHHADGYDNNLL
SVQMPQYSCARVQLPMLNTDMTCETLMMWEAVSCKTEVVGIGSLISVHLL
EAKMEAGPNSDGPSRPIEGMNYHMFAVGGEPLDLQGIESNGQTKYATAIP
AKSIHPNDIAKLPEEDKAQLQGLVPKAKAKLDKDGFYPVEEWSPDPSRNE
NSRYYGSFVGGLQTPPNLQFTNAVSTVLLDENGVGPLCKGDGLFVSCADI
CGVLVKADNEAIRYRGLPRYFKVTLRKRAVK

Ligand information

• Ligand ID: GAL
• InChI: InChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3+,4+,5-,6-/m1/s1
• InChIKey: WQZGKKKJIJFFOK-FPRJBGLDSA-N
• SMILES:
  CACTVS 3.370: OC[C@H]1O[C@@H](O)[C@H](O)[C@@H](O)[C@H]1O
  OpenEye OEToolkits 1.7.2: C(C1C(C(C(C(O1)O)O)O)O)O
  CACTVS 3.370: OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
  ACDLabs 12.01: OC1C(O)C(OC(O)C1O)CO
  OpenEye OEToolkits 1.7.2: C([C@@H]1[C@@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O)O
• Formula: C6 H12 O6
• Name: beta-D-galactopyranose;
  beta-D-galactose;
  D-galactose;
  galactose
• ChEMBL: CHEMBL300520
• ZINC: ZINC000002597049
• PDB chain: 6y5y Chain O Residue 2

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6y5y Structural Basis and Evolution of Glycan Receptor Specificities within the Polyomavirus Family.
• Resolution: 1.8 Å
• Binding residue (original residue number in PDB): K296 D298
• Binding residue (residue number reindexed from 1): K256 D258
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0005198 structural molecule activity

Cellular Component

• GO:0019028 viral capsid

External links

• PDB: RCSB:6y5y, PDBe:6y5y, PDBj:6y5y
• PDBsum: 6y5y
• PubMed: 32723915
• UniProt: A0A024B5J2