SMTL ID : 5weu.1

Crystal Structure of H2-Dd with disulfide-linked 10mer peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: R.169, L.172, K.173 1 PLIP interactions: 1 interactions with chain A Water bridges: A:L.172 EDO.2: 5 residues within 4Å: Chain A: L.215, W.217, M.228, E.229, S.246 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.217, A:E.229, A:E.229, A:S.246 EDO.3: 6 residues within 4Å: Chain A: W.114, F.116, W.133, W.147, D.156 Chain C: V.8 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.152, A:R.155 EDO.4: 8 residues within 4Å: Chain A: F.8, V.9, T.10, M.23, V.25 Chain B: M.54, S.55, F.56 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.8, A:T.10 EDO.5: 7 residues within 4Å: Chain A: L.206, R.234, Q.242 Chain B: Y.10, S.11, H.13, P.14 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.234, A:Q.242, A:Q.242, B:S.11 EDO.6: 5 residues within 4Å: Chain B: Q.8, V.9, Y.94, W.95, D.96 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:V.9, B:Y.94, B:D.96 Water bridges: B:Q.8, B:M.99, A:R.234

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, J. et al., Crystal structure of a TAPBPR-MHC I complex reveals the mechanism of peptide editing in antigen presentation. Science (2017)

Release Date

2017-10-18

Peptides

H-2 class I histocompatibility antigen, D-D alpha chain: A
Beta-2-microglobulin: B
Envelope glycoprotein gp160: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
P

H-2 class I histocompatibility antigen, D-D alpha chain

Beta-2-microglobulin

Envelope glycoprotein gp160

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