1DEQ

THE CRYSTAL STRUCTURE OF MODIFIED BOVINE FIBRINOGEN (AT ~4 ANGSTROM RESOLUTION)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.370 
  • R-Value Work: 0.257 
  • R-Value Observed: 0.263 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The crystal structure of modified bovine fibrinogen.

Brown, J.H.Volkmann, N.Jun, G.Henschen-Edman, A.H.Cohen, C.

(2000) Proc Natl Acad Sci U S A 97: 85-90

  • DOI: 10.1073/pnas.97.1.85
  • Primary Citation of Related Structures:  
    1DEQ

  • PubMed Abstract: 
  • Here we report the crystal structure at approximately 4-A resolution of a selectively proteolyzed bovine fibrinogen. This key component in hemostasis is an elongated 340-kDa glycoprotein in the plasma that upon activation by thrombin self-assembles t ...

    Here we report the crystal structure at approximately 4-A resolution of a selectively proteolyzed bovine fibrinogen. This key component in hemostasis is an elongated 340-kDa glycoprotein in the plasma that upon activation by thrombin self-assembles to form the fibrin clot. The crystals are unusual because they are made up of end-to-end bonded molecules that form flexible filaments. We have visualized the entire coiled-coil region of the molecule, which has a planar sigmoidal shape. The primary polymerization receptor pockets at the ends of the molecule face the same way throughout the end-to-end bonded filaments, and based on this conformation, we have developed an improved model of the two-stranded protofibril that is the basic building block in fibrin. Near the middle of the coiled-coil region, the plasmin-sensitive segment is a hinge about which the molecule adopts different conformations. This segment also includes the boundary between the three- and four-stranded portions of the coiled coil, indicating the location on the backbone that anchors the extended flexible Aalpha arm. We suggest that a flexible branch point in the molecule may help accommodate variability in the structure of the fibrin clot.


    Related Citations: 
    • Fibrinogen Structure in Projection at 18 Angstroms Resolution
      Rao, S.P.S., Poojary, M.D., Elliott Jr., B.W., Melanson, L.A., Oriel, B., Cohen, C.
      (1991) J Mol Biol 222: 89
    • Crystals of Modified Fibrinogen: Size, Shape and Packing of Molecules
      Weisel, J.W., Warren, S.G., Cohen, C.
      (1978) J Mol Biol 126: 159
    • Crystalline States of a Modified Fibrinogen
      Tooney, N.M., Cohen, C.
      (1977) J Mol Biol 110: 363

    Organizational Affiliation

    Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA 02454-9110, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
FIBRINOGEN (ALPHA CHAIN)ADNQ390Bos taurusMutation(s): 0 
Gene Names: FGA
Find proteins for P02672 (Bos taurus)
Explore P02672 
Go to UniProtKB:  P02672
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
FIBRINOGEN (BETA CHAIN)BEOR408Bos taurusMutation(s): 0 
Gene Names: FGB
Find proteins for P02676 (Bos taurus)
Explore P02676 
Go to UniProtKB:  P02676
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
FIBRINOGEN (GAMMA CHAIN)CFPS411Bos taurusMutation(s): 0 
Gene Names: FGG
Find proteins for P12799 (Bos taurus)
Explore P12799 
Go to UniProtKB:  P12799
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
FIBRINOGENMZ90Bos taurusMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.370 
  • R-Value Work: 0.257 
  • R-Value Observed: 0.263 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 176.006α = 90
b = 94.935β = 94.41
c = 209.805γ = 90
Software Package:
Software NamePurpose
AMoREphasing
X-PLORrefinement
DENZOdata reduction
CCP4data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-02-02
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance