4OGA

Insulin in complex with Site 1 of the human insulin receptor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.264 
  • R-Value Observed: 0.265 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Protective hinge in insulin opens to enable its receptor engagement.

Menting, J.G.Yang, Y.Chan, S.J.Phillips, N.B.Smith, B.J.Whittaker, J.Wickramasinghe, N.P.Whittaker, L.J.Pandyarajan, V.Wan, Z.L.Yadav, S.P.Carroll, J.M.Strokes, N.Roberts, C.T.Ismail-Beigi, F.Milewski, W.Steiner, D.F.Chauhan, V.S.Ward, C.W.Weiss, M.A.Lawrence, M.C.

(2014) Proc Natl Acad Sci U S A 111: E3395-E3404

  • DOI: 10.1073/pnas.1412897111
  • Primary Citation of Related Structures:  
    2MPI, 2MLI, 4NIB, 4OGA

  • PubMed Abstract: 
  • Insulin provides a classical model of a globular protein, yet how the hormone changes conformation to engage its receptor has long been enigmatic. Interest has focused on the C-terminal B-chain segment, critical for protective self-assembly in β cells and receptor binding at target tissues ...

    Insulin provides a classical model of a globular protein, yet how the hormone changes conformation to engage its receptor has long been enigmatic. Interest has focused on the C-terminal B-chain segment, critical for protective self-assembly in β cells and receptor binding at target tissues. Insight may be obtained from truncated "microreceptors" that reconstitute the primary hormone-binding site (α-subunit domains L1 and αCT). We demonstrate that, on microreceptor binding, this segment undergoes concerted hinge-like rotation at its B20-B23 β-turn, coupling reorientation of Phe(B24) to a 60° rotation of the B25-B28 β-strand away from the hormone core to lie antiparallel to the receptor's L1-β2 sheet. Opening of this hinge enables conserved nonpolar side chains (Ile(A2), Val(A3), Val(B12), Phe(B24), and Phe(B25)) to engage the receptor. Restraining the hinge by nonstandard mutagenesis preserves native folding but blocks receptor binding, whereas its engineered opening maintains activity at the price of protein instability and nonnative aggregation. Our findings rationalize properties of clinical mutations in the insulin family and provide a previously unidentified foundation for designing therapeutic analogs. We envisage that a switch between free and receptor-bound conformations of insulin evolved as a solution to conflicting structural determinants of biosynthesis and function.


    Organizational Affiliation

    Structural Biology Division, The Walter and Eliza Hall Institute of Medical Research, Parkville, VIC 3052, Australia;Department of Medical Biology, University of Melbourne, Parkville, VIC 3010, Australia dfsteine@midway.uchicago.edu michael.weiss@case.edu lawrence@wehi.edu.au.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Insulin A chainA21Homo sapiensMutation(s): 0 
Gene Names: INS
Find proteins for P01308 (Homo sapiens)
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PHAROS:  P01308
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Insulin B chainB30Homo sapiensMutation(s): 0 
Gene Names: INS
Find proteins for P01308 (Homo sapiens)
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PHAROS:  P01308
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
monoclonal antibody fab 83-7 fragment - heavy chainC118Mus musculusMutation(s): 0 
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
monoclonal antibody fab 83-7 fragment - light chainD114Mus musculusMutation(s): 0 
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Insulin receptor domains L1-CRE317Homo sapiensMutation(s): 1 
Gene Names: INSR
EC: 2.7.10.1
Find proteins for P06213 (Homo sapiens)
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PHAROS:  P06213
Protein Feature View
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Insulin receptor alpha-CT peptideF16Homo sapiensMutation(s): 0 
Gene Names: INSR
EC: 2.7.10.1
Find proteins for P06213 (Homo sapiens)
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PHAROS:  P06213
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  • Reference Sequence
Oligosaccharides

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Entity ID: 7
MoleculeChainsChain Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseG4 N-Glycosylation Oligosaccharides Interaction
Entity ID: 8
MoleculeChainsChain Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranoseH4 N-Glycosylation Oligosaccharides Interaction
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
I [auth E], J [auth E], K [auth E]2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.264 
  • R-Value Observed: 0.265 
  • Space Group: P 2 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 169.04α = 90
b = 169.04β = 90
c = 169.04γ = 90
Software Package:
Software NamePurpose
Blu-Icedata collection
BUSTERrefinement
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-08-27
    Type: Initial release
  • Version 1.1: 2014-09-10
    Changes: Database references
  • Version 1.2: 2017-11-22
    Changes: Refinement description
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary