SMTL ID : 6jq3.1

Crystal Structure of H2-Kb in complex with a DPAGT1 mutant peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-mer

Ligands

1 x SER- ILE- ILE- VAL- PHE- ASN- LEU- LEU: DPAGT1 mutant antigen SIIVFNLL(Non-covalent)

SER-ILE-ILE-VAL-PHE-ASN-LEU-LEU.1: 27 residues within 4Å: Chain A: Y.7, V.9, E.24, Y.45, E.63, K.66, N.70, S.73, F.74, V.76, D.77, T.80, L.81, Y.84, V.97, Q.114, Y.116, Y.123, T.143, K.146, W.147, E.152, R.155, L.156, Y.159, W.167, Y.171 36 PLIP interactions: 36 interactions with chain A Hydrophobic interactions: A:Y.7, A:Y.7, A:V.9, A:K.66, A:F.74, A:V.76, A:L.81, A:V.97, A:Y.116, A:Y.123, A:T.143, A:W.147, A:L.156, A:Y.159, A:Y.159, A:Y.159 Hydrogen bonds: A:Y.7, A:E.63, A:K.66, A:N.70, A:N.70, A:D.77, A:D.77, A:D.77, A:Y.84, A:E.152, A:R.155, A:Y.159, A:W.167, A:Y.171, A:Y.171 Water bridges: A:Y.59, A:Y.116, A:E.152, A:Y.159 Salt bridges: A:K.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bai, P. et al., Immune-based mutation classification enables neoantigen prioritization and immune feature discovery in cancer immunotherapy. Oncoimmunology (2021)

Release Date

2020-05-06

Peptides

H-2 class I histocompatibility antigen, K-B alpha chain: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

H-2 class I histocompatibility antigen, K-B alpha chain

Beta-2-microglobulin

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