Fibrinogen

Dan Jacobson danj at welchdev.welch.jhu.edu
Fri Aug 6 10:50:32 EST 1993


In article <1993Aug6.155222.293 at chmeds.ac.nz> tdw at chmeds.ac.nz () writes:
>A friend is looking for the X-ray crystalography structure of fibrinogen, and
>or fibrinogen parts. Any help much appreciated.
>
>tdw at twizon.chmeds.ac.nz
>

Hmm, the only thing I could find is a compex with a few residues of
fibrinogen - it's  Pre-release from PDB:

-----------------------------------------------------------------------


HEADER    PRELIMINARY                             27-APR-92  P1BBR    
COMPND    BOVINE THROMBIN (E.C.3.4.21.5) COMPLEX WITH RESIDUES 7 - 16 
COMPND   2 OF FIBRINOPEPTIDE-A ALPHA                                  
SOURCE    BOVINE (BOS $TAURUS) BLOOD                                  
AUTHOR    P.MARTIN,B.EDWARDS                                          
   1                                                            
   1 REFERENCE 1                                                
   1  AUTH   P.D.MARTIN,W.ROBERTSON,D.TURK,R.HUBER,W.BODE,      
   1  AUTH 2 B.F.P.EDWARDS                                      
   1  TITL   THE STRUCTURE OF RESIDUES 7-16 OF THE A ALPHA-CHAIN
   1  TITL 2 OF HUMAN FIBRINOGEN BOUND TO BOVINE THROMBIN AT    
   1  TITL 3 2.3-*ANGSTROMS RESOLUTION                          
   1  REF    J.BIOL.CHEM.                  V. 267  7911 1992    
   1  REFN   ASTM JBCHA3  US ISSN 0021-9258                  071
   2                                                            
   2 RESOLUTION. 2.3  ANGSTROMS.                                
   3                                                            
   3 REFINEMENT.                                                
   3   PROGRAM                    PROLSQ                        
   3   AUTHORS                    KONNERT AND HENDRICKSON       
   3   R VALUE                    0.167                         
   3   RMSD BOND LENGTHS          0.020  ANGSTROMS              
   3   RMSD BOND ANGLES           3.3    DEGREES                
   4     
   5 THE SEQUENCE IS IN THE THROMBIN NUMBERING CONVENTION WITH  
   5 RESIDUE 1 AT THE POINT IT IS CLEAVED FROM PROTHROMBIN AND  
   5 ENDING WITH 308.  FIBRINOPEPTIDE SEQUENCE NUMBERS ARE 309  
   5 TO 318 AND CORRESPOND TO RESIDUES 7 TO 16 OF FIBRINOGEN-A  
   5 ALPHA.  THE N-TERMINUS OF THE FIBRINOPEPTIDE IS ACETYLATED.
   5                                                            
   6 THERE ARE THREE INDEPENDENT COMPLEXES IN THE ASYMMETRIC    
   6 UNIT.  MOLECULE I IS EPSILON-THROMBIN (CHAIN BREAK BETWEEN 
   6 RESIDUES 199 AND 200), AND MOLECULES II AND III ARE        
   6 ALPHA-THROMBIN.  FIBRINOPEPTIDE I HAS AN OCCUPANCY THAT    
   6 MAKES THE AVERAGE B OF ARG-318 ROUGHLY EQUAL TO THAT IN    
   6 FIBRINOPEPTIDES II AND III.  THE DEPOSITORS DO NOT SEE ANY 
   6 DENSITY AT ALL FOR THROMBIN RESIDUES 1-13, AND POOR DENSITY
   6 FOR THE N AND C TERMINI OF THE A CHAINS, THE C TERMINUS OF 
   6 THE B CHAINS, AND THE FIVE RESIDUES BORDERING 200 IN       
   6 MOLECULES II AND III.                                      
FTNOTE   1                                                            
FTNOTE   1 RESIDUES PRO T 72, PRO U 72, AND PRO V 72 ARE CIS PROLINES.

----------------------------------------------------------------------

If this will help you can retrieve the entire structure with gopher - 
write me a note if you've never heard of gopher, I'll send you some info to
help get you started.

Best of luck,

Dan Jacobson

danj at welchgate.welch.jhu.edu



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