SMTL ID : 4md5.1

Immune Receptor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: V.116, N.118, E.166, W.168 Chain B: D.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.4, B:D.4

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

NAG.2: 3 residues within 4Å: Chain A: R.76, S.77, N.78 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.76, A:N.78 NAG.8: 2 residues within 4Å: Chain B: N.21, E.24 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.21

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

EDO.3: 4 residues within 4Å: Chain A: R.44, S.133, E.134, T.135 4 PLIP interactions: 4 interactions with chain A Water bridges: A:H.33, A:S.133, A:S.133, A:E.134 EDO.4: 3 residues within 4Å: Chain A: R.140, E.141, D.142 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.141, A:D.142, A:D.142 Water bridges: A:P.139, A:R.140 EDO.5: 2 residues within 4Å: Chain A: H.33, D.35 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.35 Water bridges: A:E.21, A:V.34 EDO.6: 2 residues within 4Å: Chain A: D.162, H.177 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.177 Water bridges: A:G.125, A:V.160 EDO.7: 2 residues within 4Å: Chain A: V.85, P.86 No protein-ligand interaction detected (PLIP) EDO.9: 2 residues within 4Å: Chain B: R.168, S.169 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.169 EDO.10: 6 residues within 4Å: Chain B: S.128, I.129, E.130, E.178, H.179, P.180 1 PLIP interactions: 1 interactions with chain B Water bridges: B:H.179 EDO.11: 3 residues within 4Å: Chain A: V.104, Y.150 Chain B: D.154 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.154, B:D.154 Water bridges: A:S.133

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.12: 3 residues within 4Å: Chain B: S.146, T.159, V.161 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.146, B:T.159, B:T.159

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Scally, S.W. et al., A molecular basis for the association of the HLA-DRB1 locus, citrullination, and rheumatoid arthritis. J.Exp.Med. (2013)

Release Date

2013-12-04

Peptides

HLA class II histocompatibility antigen, DR alpha chain: A
HLA class II histocompatibility antigen, DRB1-4 beta chain: B
Citrullinated Vimentin: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

HLA class II histocompatibility antigen, DR alpha chain

HLA class II histocompatibility antigen, DRB1-4 beta chain

Citrullinated Vimentin

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