Structure of PDB 8cmb Chain B Binding Site BS01

Receptor Information
>8cmb Chain B (length=194) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MGSMGDTRPRFLWQLKFECHFFNGTERVRLLERCIYNQEESVRFDSDVGE
YRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTVQRRVE
PKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTG
LIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRA
Ligand information
>8cmb Chain C (length=14) Species: 2697049 (Severe acute respiratory syndrome coronavirus 2) [Search peptide sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
FNCYFPLQSYGFQP
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8cmb Structural definition of HLA class II-presented SARS-CoV-2 epitopes reveals a mechanism to escape pre-existing CD4 + T cell immunity.
Resolution1.84 Å
Binding residue
(original residue number in PDB)		W9 F13 D57 Y60 W61 L67 R71 Y78 H81 N82 V85
Binding residue
(residue number reindexed from 1)		W13 F17 D61 Y64 W65 L71 R75 Y82 H85 N86 V89
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Biological Process
GO:0006955 immune response
GO:0019882 antigen processing and presentation
Cellular Component
GO:0016020 membrane
GO:0042613 MHC class II protein complex

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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8cmb, PDBe:8cmb, PDBj:8cmb
PDBsum8cmb
PubMed37471227
UniProtD7RIG0

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