SMTL ID : 8dnt.1 (3 other biounits)

SARS-CoV-2 specific T cell receptor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.18 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x LEU- LEU- LEU- ASP- ARG- LEU- ASN- GLN- LEU: Nucleoprotein(Non-covalent)

LEU-LEU-LEU-ASP-ARG-LEU-ASN-GLN-LEU.1: 40 residues within 4Å: Chain A: Q.30, S.31, Y.50, R.91, A.94, Q.95 Chain B: T.30, Q.50, D.97, L.98, G.99 Chain C: M.6, Y.8, F.10, M.46, Y.60, E.64, K.67, A.70, H.71, T.74, V.77, D.78, T.81, L.82, Y.85, R.98, Y.100, Y.117, Y.124, T.144, K.147, W.148, V.153, Q.156, L.157, Y.160, T.164, W.168, Y.172 39 PLIP interactions: 6 interactions with chain A, 6 interactions with chain B, 27 interactions with chain C Hydrophobic interactions: A:Q.30, C:Y.8, C:F.10, C:Y.60, C:K.67, C:L.82, C:Y.117, C:Y.124, C:T.144, C:Y.160, C:Y.160, C:W.168, C:W.168 Hydrogen bonds: A:Q.30, A:Q.30, A:Q.30, A:S.31, A:Q.95, B:Q.50, B:D.97, B:D.97, B:L.98, B:G.99, B:G.99, C:Y.8, C:Y.60, C:E.64, C:K.67, C:D.78, C:Y.85, C:Y.100, C:Y.100, C:T.144, C:Q.156, C:Y.160, C:Y.172, C:Y.172 Salt bridges: C:K.67, C:K.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choy, C. et al., SARS-CoV-2 infection establishes a stable and age-independent CD8 + T cell response against a dominant nucleocapsid epitope using restricted T cell receptors. Nat Commun (2023)

Release Date

2023-07-19

Peptides

T-cell receptor alpha chain: A
T-cell receptor beta chain: B
MHC class I antigen alpha chain: C
Beta-2-microglobulin: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

D
F

T-cell receptor alpha chain

T-cell receptor beta chain

MHC class I antigen alpha chain

Beta-2-microglobulin

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