SMTL ID : 3l3i.1

Crystal structure of HLA-B*4402 in complex with the F7A mutant of a self-peptide derived from DPA*0201

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLU- GLU- PHE- GLY- ARG- ALA- ALA- SER- PHE: peptide from HLA-DPA1 protein(Non-covalent)

GLU-GLU-PHE-GLY-ARG-ALA-ALA-SER-PHE.1: 31 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, N.70, T.73, E.76, N.77, T.80, Y.84, I.95, Y.99, Y.123, T.143, K.146, W.147, V.152, Q.155, D.156, Y.159, L.163, S.167, R.170, Y.171 Ligands: GOL.3 39 PLIP interactions: 39 interactions with chain A Hydrophobic interactions: A:Y.7, A:Y.59, A:N.77, A:I.95, A:I.95, A:Y.99, A:Y.123, A:V.152, A:Q.155, A:Y.159, A:Y.159, A:L.163 Hydrogen bonds: A:Y.7, A:E.63, A:E.76, A:N.77, A:Y.99, A:Y.99, A:Y.99, A:T.143, A:Q.155, A:Y.159, A:S.167, A:Y.171 Water bridges: A:Y.9, A:T.24, A:R.62, A:R.62, A:R.62, A:N.70, A:N.70, A:T.80, A:R.97, A:W.147, A:R.170 Salt bridges: A:K.45, A:R.62, A:K.146, A:R.170

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: R.6, F.8, Y.27, D.29, D.30 Chain B: Y.63 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.30, B:F.56 Water bridges: B:Y.63 GOL.3: 12 residues within 4Å: Chain A: Y.74, R.97, D.114, D.116, W.133, W.147, V.152, D.156 Ligands: GLU-GLU-PHE-GLY-ARG-ALA-ALA-SER-PHE.1, GLU-GLU-PHE-GLY-ARG-ALA-ALA-SER-PHE.1, GLU-GLU-PHE-GLY-ARG-ALA-ALA-SER-PHE.1, GLU-GLU-PHE-GLY-ARG-ALA-ALA-SER-PHE.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.74, A:Y.74, A:R.97, A:D.156 GOL.4: 3 residues within 4Å: Chain A: L.230, E.232, K.243 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.243, A:K.243 Water bridges: A:T.233, A:T.233 GOL.5: 7 residues within 4Å: Chain A: W.204, L.206 Chain B: S.11, H.13, P.14, A.15, R.97 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:A.15, B:R.97 Water bridges: B:S.11, A:H.188, A:Q.242

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Theodossis, A. et al., Constraints within major histocompatibility complex class I restricted peptides: presentation and consequences for T-cell recognition. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-03-16

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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