SMTL ID : 8d5k.1

The complex of Pre-mRNA-Processing Factor 19 (Prpf19) peptide KYLQVASHV Presented by H2-Kd

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

hetero-1-1-mer

Ligands

1 x LYS- TYR- ARG- GLN- VAL- ALA- SER- HIS- VAL: Pre-mRNA-processing factor 19(Non-covalent)

LYS-TYR-ARG-GLN-VAL-ALA-SER-HIS-VAL.1: 29 residues within 4Å: Chain A: L.5, Y.7, V.9, F.22, A.24, F.45, Y.59, E.62, Q.63, R.66, S.69, D.70, W.73, V.76, S.77, T.80, Y.84, R.97, F.99, F.116, T.143, K.146, W.147, D.152, Y.156, Y.159, E.163, W.167, Y.171 36 PLIP interactions: 36 interactions with chain A Hydrophobic interactions: A:Y.7, A:V.9, A:A.24, A:F.45, A:Y.59, A:W.73, A:T.80, A:F.116, A:Y.159, A:Y.159, A:W.167, A:W.167 Hydrogen bonds: A:Y.7, A:E.62, A:Q.63, A:R.66, A:R.66, A:S.69, A:S.69, A:D.70, A:D.70, A:D.70, A:R.97, A:R.97, A:T.143, A:Y.156, A:Y.159, A:Y.171, A:Y.171 Water bridges: A:W.73, A:S.77, A:Y.156, A:Y.156 Salt bridges: A:K.146, A:E.163 pi-Stacking: A:F.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Custodio, J.M. et al., Structural and physical features that distinguish tumor-controlling from inactive cancer neoepitopes. Proc.Natl.Acad.Sci.USA (2023)

Release Date

2022-07-06

Peptides

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

Beta-2-microglobulin

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