SMTL ID : 6v19.1

immune receptor complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-1-1-1-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.118, E.166, H.167, W.168 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.168 Hydrogen bonds: A:N.118, A:W.168, A:W.168

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: I.8, D.25, G.28, P.139, R.140, E.141, R.146 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.139, A:E.141, A:R.146, A:R.146 GOL.3: 2 residues within 4Å: Chain B: D.76 Chain D: T.54 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Water bridges: B:D.76, D:Y.32 GOL.4: 5 residues within 4Å: Chain D: E.65, A.66, T.67, H.76, Q.78 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:E.65, D:T.67, D:T.67, D:H.76 GOL.5: 6 residues within 4Å: Chain B: D.66, Q.70 Chain D: K.51, I.53 Chain E: Q.98, N.99 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:K.51, E:N.99 GOL.6: 7 residues within 4Å: Chain D: N.116, I.117, Q.118, N.119, D.171, F.172, K.173 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:N.116, D:Q.118, D:N.119, D:N.119, D:D.171, D:K.173 GOL.7: 2 residues within 4Å: Chain D: E.44, G.45 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.44, D:G.45 GOL.8: 5 residues within 4Å: Chain A: Q.57 Chain D: K.102 Chain E: I.53, V.54, N.55 4 PLIP interactions: 1 interactions with chain D, 2 interactions with chain E, 1 interactions with chain A Hydrogen bonds: D:K.102, E:N.55, E:E.56, A:Q.57 GOL.9: 6 residues within 4Å: Chain D: R.40 Chain E: Q.35, V.86, L.88, A.105 Ligands: GOL.10 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:Q.35 GOL.10: 6 residues within 4Å: Chain E: N.7, Y.8, A.105, G.106, R.108 Ligands: GOL.9 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lim, J.J. et al., The shared susceptibility epitope of HLA-DR4 binds citrullinated self-antigens and the TCR. Sci Immunol (2021)

Release Date

2020-11-25

Peptides

HLA class II histocompatibility antigen, DR alpha chain: A
HLA class II histocompatibility antigen, DRB1-4 beta chain: B
Fibrinogen beta 72,74cit69-81: C
M134 TCR alpha chain: D
M134 TCR beta chain: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

HLA class II histocompatibility antigen, DR alpha chain

HLA class II histocompatibility antigen, DRB1-4 beta chain

Fibrinogen beta 72,74cit69-81

M134 TCR alpha chain

M134 TCR beta chain

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