SMTL ID : 5m02.1

Crystal structure of murine P14 TCR / H-2Db with PF, modified gp33 peptide from LCMV

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x LYS- ALA- PRO- PHE- ASN- PHE- ALA- THR- MET: LCMV-DERIVED GP33 ALTERED PEPTIDE LIGAND PF(Non-covalent)

LYS-ALA-PRO-PHE-ASN-PHE-ALA-THR-MET.1: 39 residues within 4Å: Chain A: M.5, Y.7, E.9, Y.45, Y.59, E.63, K.66, Q.70, W.73, F.74, V.76, S.77, N.80, L.81, Y.84, L.95, Q.97, S.99, F.116, Y.123, T.143, K.146, W.147, S.150, H.155, Y.156, Y.159, E.163, W.167, Y.171 Chain C: Y.101, G.102, N.103 Chain D: D.93, A.94, G.95, G.96, R.97, N.98 36 PLIP interactions: 4 interactions with chain D, 32 interactions with chain A Hydrophobic interactions: D:A.94, A:Y.7, A:Y.59, A:K.66, A:W.73, A:V.76, A:H.155, A:Y.159, A:W.167, A:W.167 Hydrogen bonds: D:D.93, D:G.96, D:N.98, A:E.63, A:K.66, A:Q.70, A:Q.70, A:S.77, A:N.80, A:Q.97, A:Q.97, A:T.143, A:K.146, A:Y.156, A:Y.156, A:Y.159, A:Y.171 Water bridges: A:E.58, A:E.63, A:E.63, A:K.66, A:S.150, A:S.150 Salt bridges: A:K.146 pi-Stacking: A:Y.156 pi-Cation interactions: A:H.155

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: Q.115, D.122 Chain B: K.78, W.80 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.78, A:Q.115 GOL.3: 8 residues within 4Å: Chain A: F.8, T.10, I.23, V.25 Chain B: M.74, S.75, F.76, F.82 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:F.8, A:V.25, B:S.75 Water bridges: B:F.76 GOL.4: 7 residues within 4Å: Chain D: T.84, A.85, R.107, L.108, S.109, D.150, H.151 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.107, D:L.108, D:S.109, D:D.150 Water bridges: D:T.37, D:D.150

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Allerbring, E. et al., Thernary complexes of TCR P14 give insights into the mechanisms behind reestablishment of CTL responses against a viral escape mutant. To Be Published

Release Date

2017-12-20

Peptides

H-2 class I histocompatibility antigen, D-B alpha chain: A
Beta-2-microglobulin: B
Protein Trav14-1,T-cell receptor alpha chain C region: C
T-cell receptor beta chain V region C5,T-cell receptor beta-2 chain C region: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
G

D
H

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

Beta-2-microglobulin

Protein Trav14-1,T-cell receptor alpha chain C region

T-cell receptor beta chain V region C5,T-cell receptor beta-2 chain C region

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