SMTL ID : 8qy4.1

Structure of interleukin 11 (gp130 P496L mutant).

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-mer

Ligands

6 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: 4 residues within 4Å: Chain B: G.41, S.42, N.43, T.92 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain D: G.41, S.42, N.43, T.92 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain E: D.124, E.126, N.127, H.183, S.245, P.247 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 9 residues within 4Å: Chain D: F.108 Chain E: L.145, R.192, N.194, T.196, V.198, A.203, T.205, L.207 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:A.203 NAG-NAG.5: 6 residues within 4Å: Chain F: D.124, E.126, N.127, H.183, S.245, P.247 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 9 residues within 4Å: Chain B: F.108 Chain F: L.145, R.192, N.194, T.196, V.198, A.203, T.205, L.207 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:A.203

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

NAG.7: 5 residues within 4Å: Chain B: N.61, S.63, Y.64, T.80, R.84 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.63, B:S.63, B:Y.64, B:Y.64 NAG.8: 6 residues within 4Å: Chain B: I.47, V.49, I.82, N.83, T.85, T.86 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.83 NAG.9: 3 residues within 4Å: Chain B: N.131, T.133, Q.145 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.131, B:T.133 NAG.10: 6 residues within 4Å: Chain B: E.155, T.156, N.157, E.199, N.200, A.201 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.155, B:N.157 NAG.11: 3 residues within 4Å: Chain B: Y.224, N.225, V.243 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:Y.224, B:V.243 Hydrogen bonds: B:N.225 NAG.12: 5 residues within 4Å: Chain D: N.61, S.63, Y.64, T.80, R.84 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:S.63, D:S.63, D:Y.64, D:Y.64 NAG.13: 6 residues within 4Å: Chain D: I.47, V.49, I.82, N.83, T.85, T.86 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.83 NAG.14: 3 residues within 4Å: Chain D: N.131, T.133, Q.145 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.131, D:T.133 NAG.15: 6 residues within 4Å: Chain D: E.155, T.156, N.157, E.199, N.200, A.201 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.155, D:N.157 NAG.16: 3 residues within 4Å: Chain D: Y.224, N.225, V.243 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:Y.224, D:V.243 Hydrogen bonds: D:N.225

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gardner, S. et al., Structural insights into IL-11-mediated signalling and human IL6ST variant-associated immunodeficiency. Nat Commun (2024)

Release Date

2024-02-21

Peptides

Interleukin-11: AC
Interleukin-6 receptor subunit beta: BD
Interleukin-11 receptor subunit alpha: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
D

B
C

D
F

E
B

F
E

Interleukin-11

Interleukin-6 receptor subunit beta

Interleukin-11 receptor subunit alpha

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