SMTL ID : 5ieh.1

Structure of HLA-B*40:02 in complex with the phosphorylated endogenous peptide REF(p)SKEPEL

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ARG- GLU- PHE- SEP- LYS- GLU- PRO- GLU- LEU: Inner centromere protein(Non-covalent)

ARG-GLU-PHE-SEP-LYS-GLU-PRO-GLU-LEU.1: 34 residues within 4Å: Chain A: M.6, Y.8, H.10, T.25, F.34, K.46, Y.60, R.63, E.64, I.67, S.68, N.71, T.74, Y.75, E.77, S.78, N.81, L.82, Y.85, L.96, S.98, Y.100, Y.117, Y.124, T.144, K.147, W.148, V.153, Q.156, L.157, Y.160, E.164, W.168, Y.172 55 PLIP interactions: 55 interactions with chain A Hydrophobic interactions: A:Y.8, A:E.77, A:L.96, A:Y.100, A:Y.117, A:Y.124, A:W.148, A:V.153, A:L.157, A:Y.160, A:Y.160, A:W.168 Hydrogen bonds: A:Y.8, A:R.63, A:R.63, A:E.64, A:S.68, A:Y.75, A:S.78, A:N.81, A:N.81, A:Y.85, A:Y.100, A:Y.100, A:Y.100, A:Y.117, A:T.144, A:T.144, A:K.147, A:W.148, A:Y.160 Water bridges: A:R.63, A:R.63, A:N.71, A:N.71, A:N.71, A:N.71, A:N.71, A:N.71, A:N.71, A:T.74, A:T.74, A:E.77, A:N.115, A:Q.156, A:E.164, A:E.164, A:W.168 Salt bridges: A:H.10, A:H.10, A:K.46, A:R.63, A:K.147, A:K.147, A:E.164

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 11 residues within 4Å: Chain A: W.205, L.207, R.235, Q.243 Chain B: Y.11, S.12, R.13, H.14, P.15, A.16, M.100 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.12, B:S.12, B:H.14, B:M.100, A:R.235 Water bridges: A:Q.243

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alpizar, A. et al., Structure of HLA-B*40:02 in complex with the phosphorilated endogenous peptide REFpSKEPEL. To Be Published

Release Date

2016-12-07

Peptides

HLA class I histocompatibility antigen, B-40 alpha chain: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HLA class I histocompatibility antigen, B-40 alpha chain

Beta-2-microglobulin

Related Entries With Identical Sequence