SMTL ID : 9aud.1

Immune receptor complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

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

EDO.1: 2 residues within 4Å: Chain A: N.86, W.170 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.86 Water bridges: A:N.86 EDO.2: 6 residues within 4Å: Chain A: V.7, T.9, E.27, V.141 Chain B: M.42, E.44 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.27 EDO.4: 8 residues within 4Å: Chain A: V.14, Y.15, Q.16, I.21, G.22, Q.23, P.117, F.139 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.14, A:Q.16, A:Q.16 EDO.6: 8 residues within 4Å: Chain A: H.70 Chain B: N.11, P.12, Y.90 Chain D: S.29, Q.30, P.32, R.52 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:H.70, B:Y.90, B:Y.90 EDO.7: 6 residues within 4Å: Chain A: Q.59, Q.63 Chain C: S.100 Chain D: W.47, F.49, T.50 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:Q.63, D:T.50 EDO.8: 4 residues within 4Å: Chain D: L.41, G.87, T.110, V.111 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:G.87, D:T.110, D:V.111

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 4 residues within 4Å: Chain A: N.120, T.122, K.166, E.168 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.122, A:T.122, A:K.166 NAG.5: 2 residues within 4Å: Chain B: N.49, Q.52 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.52

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, J.B. et al., NP-LCK2-1TCR-MHC complex. To be published

Release Date

2025-02-05

Peptides

H-2 class II histocompatibility antigen, A-B alpha chain: A
Nucleoprotein,H-2 class II histocompatibility antigen, A beta chain: B
NPLCK1-2_TCR TRAV6-5 alpha chain: C
NPLCK1-2 TCR TRBV1 Beta chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
A

D
B

H-2 class II histocompatibility antigen, A-B alpha chain

Nucleoprotein,H-2 class II histocompatibility antigen, A beta chain

NPLCK1-2_TCR TRAV6-5 alpha chain

NPLCK1-2 TCR TRBV1 Beta chain

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