SMTL ID : 8qy5.1

Structure of interleukin 6.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-mer

Ligands

10 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: 3 residues within 4Å: Chain A: S.42, N.43, T.92 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 5 residues within 4Å: Chain A: N.61, S.63, Y.64, V.81, R.84 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 7 residues within 4Å: Chain A: Y.32, I.47, V.49, I.82, N.83, T.85, T.86 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.32 NAG-NAG.4: 4 residues within 4Å: Chain A: N.131, T.133, Q.145, Y.307 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.307 NAG-NAG.5: 5 residues within 4Å: Chain A: E.155, N.157, E.199, N.200, A.201 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 3 residues within 4Å: Chain F: S.42, N.43, T.92 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 5 residues within 4Å: Chain F: N.61, S.63, Y.64, V.81, R.84 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 7 residues within 4Å: Chain F: Y.32, I.47, V.49, I.82, N.83, T.85, T.86 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:Y.32 NAG-NAG.9: 4 residues within 4Å: Chain F: N.131, T.133, Q.145, Y.307 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:Y.307 NAG-NAG.10: 5 residues within 4Å: Chain F: E.155, N.157, E.199, N.200, A.201 No protein-ligand interaction detected (PLIP)

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

NAG.11: 3 residues within 4Å: Chain A: Y.224, N.225, V.243 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.243 Hydrogen bonds: A:N.225 NAG.12: 3 residues within 4Å: Chain F: Y.224, N.225, V.243 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:V.243 Hydrogen bonds: F: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-6 receptor subunit beta: AF
Interleukin-6: BD
Interleukin-6 receptor subunit alpha: CE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
D

B
B

D
E

C
C

E
F

Interleukin-6 receptor subunit beta

Interleukin-6

Interleukin-6 receptor subunit alpha

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