SMTL ID : 5isz.1

Crystal structure of LS01-TCR/M1-HLA-A*02 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.06 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x GLY- ILE- LEU- GLY- PHE- VAL- PHE- THR- LEU: influenza M1 for peptide(Non-covalent)

GLY-ILE-LEU-GLY-PHE-VAL-PHE-THR-LEU.1: 44 residues within 4Å: Chain A: M.5, Y.7, F.9, F.33, M.45, Y.59, E.63, K.66, V.67, A.69, H.70, T.73, V.76, D.77, T.80, L.81, Y.84, V.95, R.97, Y.99, H.114, Y.116, Y.123, I.124, T.143, K.146, W.147, V.152, Q.155, L.156, Y.159, W.167, Y.171 Chain C: Y.30, T.93, N.94, A.95, G.96 Chain D: D.30, Q.50, I.51, F.96, G.97, Q.98 45 PLIP interactions: 12 interactions with chain D, 30 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: D:Q.50, D:I.51, D:F.96, D:F.96, D:F.96, D:Q.98, A:Y.7, A:K.66, A:V.67, A:T.73, A:D.77, A:L.81, A:Y.99, A:Y.116, A:Y.123, A:W.147, A:V.152, A:Q.155, A:L.156, A:Y.159, A:Y.159, C:Y.30 Hydrogen bonds: D:D.30, D:D.30, D:Q.50, A:E.63, A:D.77, A:Y.84, A:Y.99, A:T.143, A:K.146, A:W.147, A:Y.159, A:Y.171, C:N.94, C:N.94 Water bridges: D:K.71, D:K.71, D:F.96, A:K.66, A:H.70, A:D.77, A:D.77 Salt bridges: A:K.146 pi-Stacking: A:W.147

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: T.163, E.166, W.167, R.170 Chain C: N.28 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:E.166, A:E.166, C:N.28 Water bridges: A:E.166, C:N.28 GOL.3: 5 residues within 4Å: Chain A: R.44, M.45, E.46, P.47, W.60 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.44 Water bridges: A:W.60 GOL.4: 11 residues within 4Å: Chain A: H.188, W.204, L.206, R.234, Q.242 Chain B: Y.9, S.10, R.11, H.12, P.13, R.96 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:S.10, B:S.10, B:R.96, A:R.234, A:Q.242, A:Q.242 Water bridges: B:R.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, I. et al., Broad TCR repertoire and diverse structural solutions for recognition of an immunodominant CD8(+) T cell epitope. Nat. Struct. Mol. Biol. (2017)

Release Date

2017-03-01

Peptides

HLA class I histocompatibility antigen, A-2 alpha chain: A
Beta-2-microglobulin: B
TCRalpha chain: C
TCRbeta chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
E

HLA class I histocompatibility antigen, A-2 alpha chain

Beta-2-microglobulin

TCRalpha chain

TCRbeta chain

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