SMTL ID : 8d82.1

Cryo-EM structure of human IL-6 signaling complex in detergent: model containing full extracellular domains

Coordinates

PDB Format

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: 1 residues within 4Å: Chain A: N.226 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain C: V.27, I.60, N.61, A.64 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain C: R.530, N.531, N.547, T.574, D.575, E.576 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain C: N.21, T.70, D.71 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 1 residues within 4Å: Chain C: N.109 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 1 residues within 4Å: Chain D: N.226 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 4 residues within 4Å: Chain F: V.27, I.60, N.61, A.64 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 6 residues within 4Å: Chain F: R.530, N.531, N.547, T.574, D.575, E.576 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 3 residues within 4Å: Chain F: N.21, T.70, D.71 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 1 residues within 4Å: Chain F: N.109 No protein-ligand interaction detected (PLIP)

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

NAG.11: 6 residues within 4Å: Chain A: A.201, N.202, Q.220, D.221, P.222, H.223 Ligand excluded by PLIP NAG.12: 2 residues within 4Å: Chain A: E.34, N.36 Ligand excluded by PLIP NAG.13: 3 residues within 4Å: Chain A: R.44, N.74, H.88 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain C: N.205 Ligand excluded by PLIP NAG.15: 5 residues within 4Å: Chain C: E.133, N.135, K.151, R.154, E.179 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain C: L.342, N.361 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain C: T.347, L.355, N.357 Ligand excluded by PLIP NAG.18: 5 residues within 4Å: Chain C: H.318, T.319, Y.322, T.324, N.368 Ligand excluded by PLIP NAG.19: 3 residues within 4Å: Chain C: I.540, G.541, N.542 Ligand excluded by PLIP NAG.20: 6 residues within 4Å: Chain D: A.201, N.202, Q.220, D.221, P.222, H.223 Ligand excluded by PLIP NAG.21: 2 residues within 4Å: Chain D: E.34, N.36 Ligand excluded by PLIP NAG.22: 3 residues within 4Å: Chain D: R.44, N.74, H.88 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain F: N.205 Ligand excluded by PLIP NAG.24: 5 residues within 4Å: Chain F: E.133, N.135, K.151, R.154, E.179 Ligand excluded by PLIP NAG.25: 2 residues within 4Å: Chain F: L.342, N.361 Ligand excluded by PLIP NAG.26: 3 residues within 4Å: Chain F: T.347, L.355, N.357 Ligand excluded by PLIP NAG.27: 5 residues within 4Å: Chain F: H.318, T.319, Y.322, T.324, N.368 Ligand excluded by PLIP NAG.28: 3 residues within 4Å: Chain F: I.540, G.541, N.542 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Y. et al., Structural insights into the assembly of gp130 family cytokine signaling complexes. Sci Adv (2023)

Release Date

2023-03-29

Peptides

Soluble interleukin-6 receptor subunit alpha: AD
Interleukin-6: BE
Interleukin-6 receptor subunit beta: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

D
G

B
D

E
H

C
A

F
E

Soluble interleukin-6 receptor subunit alpha

Interleukin-6

Interleukin-6 receptor subunit beta