SMTL ID : 4y19.1

immune complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

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

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN.1: 1 residues within 4Å: Chain A: N.78 No protein-ligand interaction detected (PLIP)

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.2: 5 residues within 4Å: Chain A: N.118, E.166, W.168 Chain B: S.2, G.3 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.2, B:S.2 Water bridges: B:D.4

3 x MLI: MALONATE ION(Non-functional Binders)

MLI.3: 3 residues within 4Å: Chain B: R.25, V.26, R.82 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:V.26, B:V.26 Water bridges: B:R.25 Salt bridges: B:R.25, B:R.82 MLI.4: 3 residues within 4Å: Chain A: P.16, Q.18 Chain B: R.6 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.6 MLI.5: 8 residues within 4Å: Chain D: K.38, P.40, A.41, E.42 Chain E: Q.38, V.89, F.91, R.109 7 PLIP interactions: 4 interactions with chain E, 3 interactions with chain D Hydrophobic interactions: E:V.89 Hydrogen bonds: E:Q.38, D:A.41 Water bridges: E:Q.38 Salt bridges: E:R.109, D:K.38, D:K.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Beringer, D.X. et al., T cell receptor reversed polarity recognition of a self-antigen major histocompatibility complex. Nat.Immunol. (2015)

Release Date

2015-09-23

Peptides

HLA class II histocompatibility antigen, DR alpha chain: A
HLA class II histocompatibility antigen, DRB1-4 beta chain: B
Insulin: C
FS18_alpha: D
FS18_beta: 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

Insulin

FS18_alpha

FS18_beta

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