Low resolution, molecular envelope structure of type I collagen in situ determined by fiber diffraction. Single type I collagen molecule, rigid body refinement

Experimental Data Snapshot

  • Resolution: 5.16 Å
  • R-Value Observed: 0.066 

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Microfibrillar Structure of Type I Collagen in Situ

Orgel, J.P.Irving, T.C.Miller, A.Wess, T.J.

(2006) Proc Natl Acad Sci U S A 103: 9001-9005

  • DOI: https://doi.org/10.1073/pnas.0502718103
  • Primary Citation of Related Structures:  
    3HQV, 3HR2

  • PubMed Abstract: 

    The fibrous collagens are ubiquitous in animals and form the structural basis of all mammalian connective tissues, including those of the heart, vasculature, skin, cornea, bones, and tendons. However, in comparison with what is known of their production, turnover and physiological structure, very little is understood regarding the three-dimensional arrangement of collagen molecules in naturally occurring fibrils. This knowledge may provide insight into key biological processes such as fibrillo-genesis and tissue remodeling and into diseases such as heart disease and cancer. Here we present a crystallographic determination of the collagen type I supermolecular structure, where the molecular conformation of each collagen segment found within the naturally occurring crystallographic unit cell has been defined (P1, a approximately 40.0 A, b approximately 27.0 A, c approximately 678 A, alpha approximately 89.2 degrees , beta approximately 94.6 degrees , gamma approximately 105.6 degrees ; reflections: 414, overlapping, 232, and nonoverlapping, 182; resolution, 5.16 A axial and 11.1 A equatorial). This structure shows that the molecular packing topology of the collagen molecule is such that packing neighbors are arranged to form a supertwisted (discontinuous) right-handed microfibril that interdigitates with neighboring microfibrils. This interdigitation establishes the crystallographic superlattice, which is formed of quasihexagonally packed collagen molecules. In addition, the molecular packing structure of collagen shown here provides information concerning the potential modes of action of two prominent molecules involved in human health and disease: decorin and the Matrix Metallo-Proteinase (MMP) collagenase.

  • Organizational Affiliation

    Center for Synchrotron Radiation Research and Instrumentation, Department of Biological, Chemical, and Physical Sciences, Illinois Institute of Technology, 3101 South Dearborn Street, Chicago, IL 60616, USA. orgel@lit.edu

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Collagen alpha-1(I) chain
A, C
1,056Rattus norvegicusMutation(s): 0 
Gene Names: Col1a1
Find proteins for P02454 (Rattus norvegicus)
Explore P02454 
Go to UniProtKB:  P02454
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02454
Sequence Annotations
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Collagen alpha-2(I) chain1,028Rattus norvegicusMutation(s): 0 
Gene Names: Col1a2
Find proteins for P02466 (Rattus norvegicus)
Explore P02466 
Go to UniProtKB:  P02466
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02466
Sequence Annotations
  • Reference Sequence
Small Molecules
Modified Residues  2 Unique
IDChains TypeFormula2D DiagramParent
Query on HYP
A, C
Query on LYZ
A, C
Experimental Data & Validation

Experimental Data

  • Resolution: 5.16 Å
  • R-Value Observed: 0.066 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.97α = 89.24
b = 26.95β = 94.59
c = 677.9γ = 105.58
Software Package:
Software NamePurpose

Structure Validation

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Entry History 

Deposition Data

  • Released Date: 2009-07-14 
  • Deposition Author(s): Orgel, J.P.
  • This entry supersedes: 1YGV

Revision History  (Full details and data files)

  • Version 1.0: 2009-07-14
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance