SMTL ID : 3wo4.1

Crystal structure of the IL-18 signaling ternary complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-FUC.1: 3 residues within 4Å: Chain B: N.133, H.173, G.176 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA-MAN-MAN.2: 7 residues within 4Å: Chain B: G.16, R.97, K.99, H.100, S.101, F.171, N.180 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.101, B:K.99

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.3: 6 residues within 4Å: Chain B: E.105, V.108, S.110, Y.165, N.186, T.188 No protein-ligand interaction detected (PLIP)

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

NAG-NAG.4: 7 residues within 4Å: Chain B: R.217, N.219, S.221, M.250, I.252, S.262, V.264 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:I.252 Hydrogen bonds: C:D.247 NAG-NAG.7: 3 residues within 4Å: Chain C: F.326, Q.328, N.333 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA-FUC.5: 4 residues within 4Å: Chain A: P.57 Chain B: M.233, L.278, N.280 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.57

1 x NAG- NAG- BMA- MAN: 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(Post Translational Modification)

NAG-NAG-BMA-MAN.6: 2 residues within 4Å: Chain C: T.139, N.140 No protein-ligand interaction detected (PLIP)

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

NAG.8: 3 residues within 4Å: Chain B: R.58, E.72, N.74 No protein-ligand interaction detected (PLIP) NAG.9: 1 residues within 4Å: Chain B: N.85 No protein-ligand interaction detected (PLIP) NAG.10: 2 residues within 4Å: Chain C: P.104, N.107 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.107

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.11: 3 residues within 4Å: Chain C: D.240, R.264, D.302 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tsutsumi, N. et al., The structural basis for receptor recognition of human interleukin-18. Nat Commun (2014)

Release Date

2014-12-17

Peptides

Interleukin-18: A
Interleukin-18 receptor 1: B
Interleukin-18 receptor accessory protein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Interleukin-18

Interleukin-18 receptor 1

Interleukin-18 receptor accessory protein

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