SMTL ID : 4pgd.1

MHC Class I in complex with modified Sendai virus nucleoprotein peptide FAPGNYPAF

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-mer

Ligands

1 x PHE- ALA- PRO- GLY- ASN- TYR- PRO- ALA- PHE: Sendai virus nucleoprotein(Non-covalent)

PHE-ALA-PRO-GLY-ASN-TYR-PRO-ALA-PHE.1: 26 residues within 4Å: Chain A: Y.33, V.35, Y.71, Y.85, R.88, E.89, K.92, N.96, S.99, F.100, D.103, L.107, Y.110, I.121, V.123, Q.140, Y.142, Y.149, T.169, K.172, W.173, E.178, Y.185, T.189, W.193, Y.197 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:Y.33, A:F.100, A:F.100, A:D.103, A:L.107, A:I.121, A:V.123, A:Y.142, A:Y.149, A:T.169, A:W.173, A:E.178, A:Y.185, A:T.189, A:W.193, A:W.193 Hydrogen bonds: A:Y.33, A:Y.85, A:E.89, A:K.92, A:N.96, A:S.99, A:D.103, A:E.178, A:Y.197, A:Y.197 Water bridges: A:N.96, A:S.99, A:S.125 Salt bridges: A:K.172 pi-Cation interactions: A:K.92

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: W.230 Chain B: Y.11, S.12, H.14, P.15, P.16, W.96, D.97, M.100 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Garstka, M.A. et al., The first step of peptide selection in antigen presentation by MHC class I molecules. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-01-07

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

Related Entries With Identical Sequence