SMTL ID : 6jk8.1

Cryo-EM structure of the full-length human IGF-1R in complex with insulin

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 4.70 Å

Oligo State

hetero-2-2-mer

Ligands

4 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: 6 residues within 4Å: Chain A: R.107, N.135, D.162, L.236, R.252, H.253 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.162 NAG-NAG.3: 5 residues within 4Å: Chain A: E.829, D.832, N.913, G.914, S.915 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 7 residues within 4Å: Chain B: N.135, T.137, D.162, G.220, K.221, R.252, H.253 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:R.252 NAG-NAG.5: 3 residues within 4Å: Chain B: T.498, T.500, N.607 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.498

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

NAG-NAG-MAN-MAN.2: 8 residues within 4Å: Chain A: T.498, T.500, W.574, N.607, A.608, E.809, K.812, L.813 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.498, A:T.498, A:T.498, A:T.500, A:T.500

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

NAG.6: 2 residues within 4Å: Chain A: E.50, N.51 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.50, A:N.51 NAG.7: 2 residues within 4Å: Chain A: F.532, N.534 No protein-ligand interaction detected (PLIP) NAG.8: 3 residues within 4Å: Chain A: G.899, N.900, Q.925 No protein-ligand interaction detected (PLIP) NAG.9: 3 residues within 4Å: Chain B: R.48, E.50, N.51 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.51 NAG.10: 4 residues within 4Å: Chain B: K.403, W.434, F.532, N.534 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.434 Hydrogen bonds: B:K.403 NAG.11: 2 residues within 4Å: Chain B: W.574, N.640 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:W.574 Hydrogen bonds: B:N.640

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, X. et al., Visualization of Ligand-Bound Ectodomain Assembly in the Full-Length Human IGF-1 Receptor by Cryo-EM Single-Particle Analysis. Structure (2020)

Release Date

2020-03-04

Peptides

Insulin-like growth factor 1 receptor: AB
Insulin: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Insulin-like growth factor 1 receptor

Insulin

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