Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 221.69 kDa 
• Atom Count: 7869 
• Modelled Residue Count: 953 
• Deposited Residue Count: 1911 
• Unique protein chains: 3

6HN5

Leucine-zippered human insulin receptor ectodomain with single bound insulin - "upper" membrane-distal part

• PDB DOI: 10.2210/pdb6HN5/pdb
• EM Map EMD-0247:EMDBEMDataResource

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Saccharomyces cerevisiae S288C
• Expression System: Cricetulus griseus
• Mutation(s): Yes 


• Deposited: 2018-09-14 Released: 2018-11-21 
• Deposition Author(s): Weis, F., Menting, J.G., Margetts, M.B., Chan, S.J., Xu, Y., Tennagels, N., Wohlfart, P., Langer, T., Mueller, C.W., Dreyer, M.K., Lawrence, M.C.
• Funding Organization(s): National Health and Medical Research Council (Australia), National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

The signalling conformation of the insulin receptor ectodomain.

Weis, F., Menting, J.G., Margetts, M.B., Chan, S.J., Xu, Y., Tennagels, N., Wohlfart, P., Langer, T., Muller, C.W., Dreyer, M.K., Lawrence, M.C.

(2018) Nat Commun 9: 4420-4420

• PubMed: 30356040 
• DOI: 10.1038/s41467-018-06826-6
• Primary Citation of Related Structures:  
  6HN4, 6HN5


• PubMed Abstract: 
  

Understanding the structural biology of the insulin receptor and how it signals is of key importance in the development of insulin analogs to treat diabetes. We report here a cryo-electron microscopy structure of a single insulin bound to a physiologically relevant, high-affinity version of the receptor ectodomain, the latter generated through attachment of C-terminal leucine zipper elements to overcome the conformational flexibility associated with ectodomain truncation. The resolution of the cryo-electron microscopy maps is 3.2 Å in the insulin-binding region and 4.2 Å in the membrane-proximal region. The structure reveals how the membrane proximal domains of the receptor come together to effect signalling and how insulin's negative cooperativity of binding likely arises. Our structure further provides insight into the high affinity of certain super-mitogenic insulins. Together, these findings provide a new platform for insulin analog investigation and design.

---

Organizational Affiliation: 

Department of Medical Biology, University of Melbourne, Royal Parade, Parkville, Victoria, 3050, Australia. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin	A	21	Homo sapiens	Mutation(s): 0  Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens) Explore P01308  Go to UniProtKB:  P01308
PHAROS:  P01308

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin	B	30	Homo sapiens	Mutation(s): 0  Gene Names: INS
UniProt & NIH Common Fund Data Resources
Find proteins for P01308 (Homo sapiens) Explore P01308  Go to UniProtKB:  P01308
PHAROS:  P01308

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Insulin receptor,General control protein GCN4	C [auth E], D [auth F]	930	Homo sapiens, Saccharomyces cerevisiae S288C	Mutation(s): 7  Gene Names: INSR, GCN4, AAS3, ARG9, YEL009C EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for P03069 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P03069  Go to UniProtKB:  P03069
Find proteins for P06213 (Homo sapiens) Explore P06213  Go to UniProtKB:  P06213
PHAROS:  P06213 GTEx:  ENSG00000171105
UniProt Groups	P06213P03069

Oligosaccharides

Help

Entity ID: 4
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E [auth C]	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	F [auth E], G [auth E], H [auth E], I [auth E], J [auth E], K [auth E], L [auth F], M [auth F], N [auth F]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-09-14 
• Released Date: 2018-11-21 
Deposition Author(s): Weis, F., Menting, J.G., Margetts, M.B., Chan, S.J., Xu, Y., Tennagels, N., Wohlfart, P., Langer, T., Mueller, C.W., Dreyer, M.K., Lawrence, M.C.

---

Funding Organization	Location	Grant Number
National Health and Medical Research Council (Australia)	Australia	APP1099595
National Health and Medical Research Council (Australia)	Australia	APP1128553
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)	United States	DK013914
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)	United States	UC DRTC DK020595

Revision History  

• Version 1.0: 2018-11-21
  Type: Initial release
  
• Version 1.1: 2019-11-06
  Changes: Data collection, Refinement description
• Version 1.2: 2019-12-11
  Changes: Other
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2022-03-30
  Changes: Author supporting evidence, Database references, Structure summary