SMTL ID : 5deg.1

Crystal structure of B*27:06 bound to the pVIPR peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ARG- ARG- LYS- TRP- ARG- ARG- TRP- HIS- LEU: Peptide derived of VASOACTIVE INTESTINAL POLYPEPTIDE RECEPTOR 1 (pVIPR)(Non-covalent)

ARG-ARG-LYS-TRP-ARG-ARG-TRP-HIS-LEU.1: 29 residues within 4Å: Chain A: Y.7, H.9, T.24, E.45, Y.59, R.62, E.63, Q.65, I.66, C.67, K.70, S.77, T.80, L.81, Y.84, L.95, Y.99, Y.123, T.143, K.146, W.147, A.150, E.152, Q.155, L.156, Y.159, E.163, W.167, Y.171 38 PLIP interactions: 38 interactions with chain A Hydrophobic interactions: A:Y.7, A:Y.59, A:R.62, A:I.66, A:I.66, A:K.70, A:L.81, A:L.95, A:Y.99, A:T.143, A:W.147, A:A.150, A:L.156, A:Y.159, A:W.167 Hydrogen bonds: A:T.24, A:T.24, A:R.62, A:E.63, A:S.77, A:Y.84, A:Y.99, A:Y.99, A:Y.99, A:Y.171, A:Y.171 Water bridges: A:R.62, A:R.62, A:K.70, A:D.114, A:D.114, A:Y.116, A:Y.116 Salt bridges: A:E.45, A:E.63, A:K.146, A:E.152, A:E.163

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: D.30, G.211, F.241 Ligands: GOL.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.30, A:G.211 Water bridges: A:D.30, A:D.30, A:E.212, A:E.212 GOL.3: 6 residues within 4Å: Chain A: R.6, F.8, D.29, D.30 Chain B: Y.64 Ligands: GOL.2 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:F.57, B:Y.64, A:D.30 Water bridges: B:Y.64, A:S.4, A:D.29, A:D.30

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Loll, B. et al., Increased Conformational Flexibility of HLA-B*27 Subtypes Associated With Ankylosing Spondylitis. Arthritis Rheumatol (2016)

Release Date

2015-11-18

Peptides

MHC class I antigen: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MHC class I antigen

Beta-2-microglobulin

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