SMTL ID : 4ftv.1

The complex between the high affinity version of A6 TCR (A6c134) and human Class I MHC HLA-A2 with the bound TAX nonameric peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.74 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x LEU- LEU- PHE- GLY- TYR- PRO- VAL- TYR- VAL: Protein Tax-1(Non-covalent)

LEU-LEU-PHE-GLY-TYR-PRO-VAL-TYR-VAL.1: 42 residues within 4Å: Chain A: M.5, Y.7, F.9, M.45, Y.59, E.63, K.66, V.67, H.70, Q.72, T.73, V.76, D.77, T.80, L.81, Y.84, Y.99, Y.116, T.143, W.147, A.150, V.152, Q.155, L.156, Y.159, T.163, W.167, Y.171 Chain C: G.28, Q.30, S.31, T.91, D.93, S.94 Chain D: E.30, R.94, L.97, M.98, S.99, A.100, P.102 Ligands: GOL.2 41 PLIP interactions: 33 interactions with chain A, 4 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: A:Y.7, A:F.9, A:Y.59, A:K.66, A:V.67, A:T.73, A:V.76, A:D.77, A:L.81, A:Y.99, A:Y.116, A:W.147, A:A.150, A:V.152, A:L.156, A:Y.159, A:Y.159, A:T.163, A:W.167, A:W.167, D:P.102 Hydrogen bonds: A:Y.7, A:E.63, A:K.66, A:Q.72, A:D.77, A:Y.99, A:T.143, A:Y.159, A:Y.171, D:E.30, D:R.94, D:L.97, C:Q.30, C:S.31, C:D.93, C:S.94 Water bridges: A:T.73, A:T.80, A:R.97 Salt bridges: A:K.146

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: T.80, Y.84, K.146 Ligands: LEU-LEU-PHE-GLY-TYR-PRO-VAL-TYR-VAL.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.80, A:Y.84, A:K.146 GOL.3: 2 residues within 4Å: Chain A: R.170 Chain C: R.27 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.170, A:R.170 GOL.4: 2 residues within 4Å: Chain A: S.88 Ligands: GOL.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.88, A:S.88 GOL.5: 6 residues within 4Å: Chain A: K.127, W.133, T.134, A.135, Q.141, K.144 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.127, A:K.127, A:A.135, A:A.135, A:Q.141, A:K.144, A:K.144 GOL.6: 3 residues within 4Å: Chain A: R.14, R.21 Chain B: D.35 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.14, B:D.35 GOL.7: 1 residues within 4Å: Ligands: GOL.4 No protein-ligand interaction detected (PLIP) GOL.8: 4 residues within 4Å: Chain A: R.21 Chain B: S.34, I.36, H.52 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.21, B:S.34, B:I.36 GOL.9: 4 residues within 4Å: Chain B: K.42, F.71, T.72, Y.79 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.72, B:T.72, B:T.72, B:Y.79, B:Y.79 GOL.10: 6 residues within 4Å: Chain C: L.98, Q.99, F.100 Chain D: L.43, L.45, E.59 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:L.45, C:F.100, C:F.100 GOL.11: 7 residues within 4Å: Chain D: S.67, R.68, S.69, T.70, D.73, P.75, R.77 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.67, D:S.67, D:S.69, D:T.70, D:D.73, D:R.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Borbulevych, O.Y. et al., Structure of a high affinity TCR reveals native binding to MHC with enhanced peptide specificity. To be Published

Release Date

2013-07-03

Peptides

HLA class I histocompatibility antigen, A-2 alpha chain: A
Beta-2-microglobulin: B
A6 alpha chain: C
A6 beta 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

A6 alpha chain

A6 beta chain

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