SMTL ID : 3kpp.1

Crystal Structure of HLA B*4405 in complex with EEYLQAFTY a self peptide from the ABCD3 protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLU- GLU- TYR- LEU- GLN- ALA- PHE- THR- TYR: EEYLQAFTY, self peptide from the ATP binding cassette protein ABCD3(Non-covalent)

GLU-GLU-TYR-LEU-GLN-ALA-PHE-THR-TYR.1: 33 residues within 4Å: Chain A: M.5, Y.7, Y.9, T.24, K.45, Y.59, R.62, E.63, I.66, S.67, T.69, N.70, T.73, E.76, N.77, T.80, Y.84, I.95, Y.99, Y.116, Y.123, T.143, K.146, W.147, A.150, V.152, Q.155, D.156, Y.159, L.163, S.167, R.170, Y.171 45 PLIP interactions: 45 interactions with chain A Hydrophobic interactions: A:Y.7, A:Y.59, A:T.69, A:T.73, A:T.80, A:I.95, A:Y.123, A:W.147, A:A.150, A:V.152, A:V.152, A:Y.159, A:Y.159, A:Y.159, A:L.163 Hydrogen bonds: A:Y.9, A:E.63, A:S.67, A:Y.84, A:Y.99, A:Y.99, A:D.156, A:D.156, A:S.167, A:Y.171, A:Y.171 Water bridges: A:Y.9, A:R.62, A:R.62, A:E.63, A:E.63, A:N.70, A:E.76, A:N.77, A:R.97, A:R.97, A:R.97, A:K.146, A:Q.155, A:Q.155, A:R.170 Salt bridges: A:K.45, A:R.62, A:K.146, A:R.170

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 8 residues within 4Å: Chain A: R.6, F.8, Y.27, D.29, D.30 Chain B: F.56, S.57, Y.63 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:F.56, B:Y.63 Water bridges: B:K.58 PEG.3: 6 residues within 4Å: Chain A: I.23, D.37 Chain B: H.51, S.52, D.53, L.54 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.35, B:D.53, B:L.54 Water bridges: A:R.21, B:H.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Macdonald, W.A. et al., T cell allorecognition via molecular mimicry. Immunity (2009)

Release Date

2009-12-22

Peptides

HLA class I histocompatibility antigen, B-44 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-44 alpha chain

Beta-2-microglobulin

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