2KNC | pdb_00002knc

Platelet integrin ALFAIIB-BETA3 transmembrane-cytoplasmic heterocomplex


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 98 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report

Validation slider image for 2KNC

This is version 1.6 of the entry. See complete history

Literature

Structure of an integrin alphaIIb beta3 transmembrane-cytoplasmic heterocomplex provides insight into integrin activation.

Yang, J.Ma, Y.Q.Page, R.C.Misra, S.Plow, E.F.Qin, J.

(2009) Proc Natl Acad Sci U S A 106: 17729-17734

  • DOI: https://doi.org/10.1073/pnas.0909589106
  • Primary Citation Related Structures: 
    2KNC

  • PubMed Abstract: 

    Heterodimeric integrin adhesion receptors regulate diverse biological processes including angiogenesis, thrombosis and wound healing. The transmembrane-cytoplasmic domains (TMCDs) of integrins play a critical role in controlling activation of these receptors via an inside-out signaling mechanism, but the precise structural basis remains elusive. Here, we present the solution structure of integrin alphaIIb beta3 TMCD heterodimer, which reveals a right-handed coiled-coil conformation with 2 helices intertwined throughout the transmembrane region. The helices extend into the cytoplasm and form a clasp that differs significantly from a recently published alphaIIb beta3 TMCD structure. We show that while a point mutation in the clasp interface modestly activates alphaIIb beta3, additional mutations in the transmembrane interface have a synergistic effect, leading to extensive integrin activation. Detailed analyses and structural comparison with previous studies suggest that extensive integrin activation is a highly concerted conformational transition process, which involves transmembrane coiled-coil unwinding that is triggered by the membrane-mediated alteration and disengagement of the membrane-proximal clasp. Our results provide atomic insight into a type I transmembrane receptor heterocomplex and the mechanism of integrin inside-out transmembrane signaling.


  • Organizational Affiliation
    • Department of Molecular Cardiology NB20, Lerner Research Institute, Cleveland Clinic, 9500 Euclid Avenue, Cleveland, OH 44195, USA.

Macromolecule Content 

  • Total Structure Weight: 14.83 kDa 
  • Atom Count: 1,045 
  • Modeled Residue Count: 133 
  • Deposited Residue Count: 133 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Integrin alpha-IIb54Homo sapiensMutation(s): 0 
Gene Names: ITGA2BGP2BITGAB
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P08514 (Homo sapiens)
Explore P08514 
Go to UniProtKB:  P08514
PHAROS:  P08514
GTEx:  ENSG00000005961 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08514
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Integrin beta-379Homo sapiensMutation(s): 0 
Gene Names: ITGB3GP3A
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P05106 (Homo sapiens)
Explore P05106 
Go to UniProtKB:  P05106
PHAROS:  P05106
GTEx:  ENSG00000259207 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05106
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 98 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-09-29
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2011-08-10
    Changes: Database references
  • Version 1.3: 2020-02-26
    Changes: Data collection, Database references, Other
  • Version 1.4: 2021-08-18
    Changes: Data collection, Database references, Experimental preparation, Structure summary
  • Version 1.5: 2023-06-14
    Changes: Other
  • Version 1.6: 2024-05-08
    Changes: Data collection, Database references