SMTL ID : 7md5.1

Insulin receptor ectodomain dimer complexed with two IRPA-9 partial agonists

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-4-4-mer

Ligands

4 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

NAG-NAG-FUC.1: 3 residues within 4Å: Chain A: H.21, E.22, N.25 No protein-ligand interaction detected (PLIP) NAG-NAG-FUC.3: 3 residues within 4Å: Chain A: D.234, R.252, N.255 No protein-ligand interaction detected (PLIP) NAG-NAG-FUC.6: 3 residues within 4Å: Chain B: H.21, E.22, N.25 No protein-ligand interaction detected (PLIP) NAG-NAG-FUC.8: 4 residues within 4Å: Chain B: D.234, R.252, N.255, S.257 No protein-ligand interaction detected (PLIP)

2 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.2: 8 residues within 4Å: Chain A: N.111, S.134, R.135, I.136, L.137, D.138, L.213, R.229 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.138 NAG-NAG-BMA.7: 9 residues within 4Å: Chain B: N.111, T.113, S.134, R.135, I.136, L.137, D.138, L.213, R.229 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: 2 residues within 4Å: Chain A: N.397 Chain B: E.453 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 2 residues within 4Å: Chain A: E.453 Chain B: N.397 No protein-ligand interaction detected (PLIP)

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

NAG-FUC.5: 3 residues within 4Å: Chain A: S.415, K.416, N.418 No protein-ligand interaction detected (PLIP) NAG-FUC.10: 3 residues within 4Å: Chain B: S.415, K.416, N.418 No protein-ligand interaction detected (PLIP)

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

NAG.11: 3 residues within 4Å: Chain A: N.16, T.18 Chain J: R.22 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain J Hydrogen bonds: A:N.16, J:R.22 NAG.12: 3 residues within 4Å: Chain A: N.108, K.190, N.215 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.190 Hydrogen bonds: A:N.215, A:N.215 NAG.13: 4 residues within 4Å: Chain B: N.15, N.16, T.18 Chain H: R.22 2 PLIP interactions: 1 interactions with chain H, 1 interactions with chain B Hydrogen bonds: H:R.22, B:N.16 NAG.14: 3 residues within 4Å: Chain B: N.108, K.190, N.215 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:K.190 Hydrogen bonds: B:N.215, B:N.215

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, M. et al., Functionally selective signaling and broad metabolic benefits by novel insulin receptor partial agonists. Nat Commun (2022)

Release Date

2022-02-23

Peptides

Isoform Short of Insulin receptor: AB
Isoform Short of Insulin receptor alpha: CD
Insulin chain A: EGIK
Insulin B chain: FHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
M

D
N

E
S

G
O

I
Q

K
U

F
T

H
P

J
R

L
V

Isoform Short of Insulin receptor

Isoform Short of Insulin receptor alpha

Insulin chain A

Insulin B chain

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