SMTL ID : 8vr9.1

Structure of a synthetic antibody in complex with a class I MHC presenting a hapten-peptide conjugate

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x VAL- VAL- GLY- ALA- CYS- GLY- VAL- GLY- LYS: GTPase KRas, N-terminally processed(Non-covalent)

VAL-VAL-GLY-ALA-CYS-GLY-VAL-GLY-LYS.1: 23 residues within 4Å: Chain A: M.8, Y.10, F.12, M.48, Y.62, E.66, N.69, D.80, L.84, Y.87, Y.102, D.119, Y.126, T.146, K.149, W.150, E.155, L.159, Y.162, T.166, W.170, Y.174 Ligands: MOV.2 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:Y.10, A:F.12, A:Y.62, A:L.84, A:T.146, A:W.150, A:E.155, A:T.166, A:W.170 Hydrogen bonds: A:Y.10, A:E.66, A:N.69, A:D.80, A:D.80, A:Y.102, A:D.119, A:D.119, A:W.150, A:Y.162, A:Y.174

1 x MOV: AMG 510 (bound form)(Non-covalent)

MOV.2: 22 residues within 4Å: Chain A: Q.158, Y.162, T.166 Chain C: Q.89, A.91, S.92, Y.93, K.96, T.97, I.98 Chain D: S.36, H.38, W.50, S.53, S.60, S.62, G.102, A.106, A.107, M.108 Ligands: VAL-VAL-GLY-ALA-CYS-GLY-VAL-GLY-LYS.1, VAL-VAL-GLY-ALA-CYS-GLY-VAL-GLY-LYS.1 7 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: C:I.98, C:I.98, A:Y.162, A:T.166 pi-Stacking: C:Y.93, C:Y.93 Hydrogen bonds: D:S.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maso, L. et al., Molecular basis for antibody recognition of multiple drug-peptide/MHC complexes. Proc.Natl.Acad.Sci.USA (2024)

Release Date

2024-09-04

Peptides

HLA class I histocompatibility antigen, A alpha chain: A
Beta-2-microglobulin: B
R023 Fab light chain: C
R023 Fab heavy chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
E

HLA class I histocompatibility antigen, A alpha chain

Beta-2-microglobulin

R023 Fab light chain

R023 Fab heavy chain

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