Structure of PDB 8ofr Chain T Binding Site BS01

Receptor Information

>8ofr Chain T (length=175) Species: 46927 (Human adenovirus 25)

KLTLWTTLDPSPNCRIDVDKDSKLTLVLTKCGSQILANVSLLVVKGRFQN
LNYKTNPNLPKTFTIKLLFDENGILKDSSNLDKNYWNYRNAVGFMPNLAA
YPKSTTTQSKLYARNTIFGNIYLDSQAYNPVVIKITFNQEADSAYSITLN
YSWGKDYENIPFDSTSFTFSYIAQE

Ligand information

• Ligand ID: SLB
• InChI: InChI=1S/C11H19NO9/c1-4(14)12-7-5(15)2-11(20,10(18)19)21-9(7)8(17)6(16)3-13/h5-9,13,15-17,20H,2-3H2,1H3,(H,12,14)(H,18,19)/t5-,6+,7+,8+,9+,11-/m0/s1
• InChIKey: SQVRNKJHWKZAKO-PFQGKNLYSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: CC(=O)N[C@@H]1[C@H](C[C@](O[C@H]1[C@@H]([C@@H](CO)O)O)(C(=O)O)O)O
  CACTVS 3.341: CC(=O)N[CH]1[CH](O)C[C](O)(O[CH]1[CH](O)[CH](O)CO)C(O)=O
  OpenEye OEToolkits 1.5.0: CC(=O)NC1C(CC(OC1C(C(CO)O)O)(C(=O)O)O)O
  ACDLabs 10.04: O=C(O)C1(O)OC(C(O)C(O)CO)C(NC(=O)C)C(O)C1
  CACTVS 3.341: CC(=O)N[C@@H]1[C@@H](O)C[C@](O)(O[C@H]1[C@H](O)[C@H](O)CO)C(O)=O
• Formula: C11 H19 N O9
• Name: N-acetyl-beta-neuraminic acid;
  N-acetylneuraminic acid;
  sialic acid;
  O-sialic acid;
  5-N-ACETYL-BETA-D-NEURAMINIC ACID;
  BETA-SIALIC ACID
• ChEMBL: CHEMBL165084
• DrugBank: DB04265
• ZINC: ZINC000003793840
• PDB chain: 8ofr Chain S Residue 401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8ofr Broad sialic acid usage amongst species D human adenovirus
• Resolution: 2.51 Å
• Binding residue (original residue number in PDB): N316 V328
• Binding residue (residue number reindexed from 1): N120 V132
• Annotation score: 4

Gene Ontology

Biological Process

• GO:0007155 cell adhesion
• GO:0019058 viral life cycle
• GO:0019062 virion attachment to host cell

Cellular Component

• GO:0019028 viral capsid

External links

• PDB: RCSB:8ofr, PDBe:8ofr, PDBj:8ofr
• PDBsum: 8ofr
• PubMed: 38665237
• UniProt: M0QUM1