Structure of PDB 8cmc Chain B Binding Site BS01

Receptor Information
>8cmc Chain B (length=192) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SMGDTRPRFLWQLKFECHFFNGTERVRLLERCIYNQEESVRFDSDVGEYR
AVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTVQRRVEPK
VTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLI
QNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRA
Ligand information
>8cmc 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]
VLSFELLHAPATVC
Receptor-Ligand Complex Structure
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PDB8cmc Structural definition of HLA class II-presented SARS-CoV-2 epitopes reveals a mechanism to escape pre-existing CD4 + T cell immunity.
Resolution1.42 Å
Binding residue
(original residue number in PDB)		F13 P56 D57 Y60 W61 R71 Y78 H81 N82 V85
Binding residue
(residue number reindexed from 1)		F15 P58 D59 Y62 W63 R73 Y80 H83 N84 V87
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:8cmc, PDBe:8cmc, PDBj:8cmc
PDBsum8cmc
PubMed37471227
UniProtD7RIG0

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