6VEQ

Con-Ins G1 in complex with the human insulin microreceptor in turn in complex with Fv 83-7


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.25 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.230 

wwPDB Validation 3D Report Full Report



Literature

A structurally minimized yet fully active insulin based on cone-snail venom insulin principles.

Xiong, X.Menting, J.G.Disotuar, M.M.Smith, N.A.Delaine, C.A.Ghabash, G.Agrawal, R.Wang, X.He, X.Fisher, S.J.MacRaild, C.A.Norton, R.S.Gajewiak, J.Forbes, B.E.Smith, B.J.Safavi-Hemami, H.Olivera, B.Lawrence, M.C.Chou, D.H.

(2020) Nat Struct Mol Biol 27: 615-624

  • DOI: 10.1038/s41594-020-0430-8
  • Primary Citation of Related Structures:  
    6VEP, 6VEQ, 6VET

  • PubMed Abstract: 
  • Human insulin and its current therapeutic analogs all show propensity, albeit varyingly, to self-associate into dimers and hexamers, which delays their onset of action and makes blood glucose management difficult for people with diabetes. Recently, w ...

    Human insulin and its current therapeutic analogs all show propensity, albeit varyingly, to self-associate into dimers and hexamers, which delays their onset of action and makes blood glucose management difficult for people with diabetes. Recently, we described a monomeric, insulin-like peptide in cone-snail venom with moderate human insulin-like bioactivity. Here, with insights from structural biology studies, we report the development of mini-Ins-a human des-octapeptide insulin analog-as a structurally minimal, full-potency insulin. Mini-Ins is monomeric and, despite the lack of the canonical B-chain C-terminal octapeptide, has similar receptor binding affinity to human insulin. Four mutations compensate for the lack of contacts normally made by the octapeptide. Mini-Ins also has similar in vitro insulin signaling and in vivo bioactivities to human insulin. The full bioactivity of mini-Ins demonstrates the dispensability of the PheB24-PheB25-TyrB26 aromatic triplet and opens a new direction for therapeutic insulin development.


    Organizational Affiliation

    Department of Biochemistry, University of Utah, Salt Lake City, UT, USA. dannychou@stanford.edu.



Macromolecules
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Con-Ins G1a A chainAG20Conus geographusMutation(s): 0 
Find proteins for A0A0B5AC95 (Conus geographus)
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Go to UniProtKB:  A0A0B5AC95
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Con-Ins G1 B chainBH23Conus geographusMutation(s): 0 
Find proteins for A0A0B5A8Q2 (Conus geographus)
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Go to UniProtKB:  A0A0B5A8Q2
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Insulin receptor subunit alphaEK317Homo sapiensMutation(s): 0 
Gene Names: INSR
EC: 2.7.10.1
Find proteins for P06213 (Homo sapiens)
Explore P06213 
Go to UniProtKB:  P06213
NIH Common Fund Data Resources
PHAROS  P06213
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Insulin receptorFL16Homo sapiensMutation(s): 0 
Gene Names: INSR
EC: 2.7.10.1
Find proteins for P06213 (Homo sapiens)
Explore P06213 
Go to UniProtKB:  P06213
NIH Common Fund Data Resources
PHAROS  P06213
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  • Reference Sequence
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Fv 83-7 heavy chainCI138Mus musculusMutation(s): 0 
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Fv 83-7 light chainDJ121Mus musculusMutation(s): 0 
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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-glucopyranose
M, O
4 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-glucopyranose
N, P
4 N-Glycosylation Oligosaccharides Interaction
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download CCD File 
E, K
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
SO4
Query on SO4

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D, E, K
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
CGU
Query on CGU
A,GL-PEPTIDE LINKINGC6 H9 N O6GLU
CY3
Query on CY3
A,GL-PEPTIDE LINKINGC3 H8 N2 O SCYS
HYP
Query on HYP
B,HL-PEPTIDE LINKINGC5 H9 N O3PRO
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.25 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.230 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 106.16α = 90
b = 227.12β = 90
c = 228.7γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Health and Medical Research Council (NHMRC, Australia)AustraliaAPP1143546
Other privateUnited States5-CDA-2018-572-A-N

Revision History 

  • Version 1.0: 2020-06-03
    Type: Initial release
  • Version 1.1: 2020-06-17
    Changes: Database references
  • Version 1.2: 2020-07-22
    Changes: Database references
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Structure summary