[modeller_usage] Distances longer than 8.0 Angstrom?

[Amjad Farooq <>]

Hello everyone,

Does anyone know why I am getting the error message
"Implied target CA(i)-CA(i+1) distances longer than 
8.0 angstroms:" when running MODELLER and how I can
fix it. Pasted below is the MODELLER log file:

---------------------------------------------------
                         MODELLER 7v7, Sep 12, 2004
09:15pm

     PROTEIN STRUCTURE MODELLING BY SATISFACTION OF
SPATIAL RESTRAINTS

                                                      
            
                     Copyright(c) 1989-2004 Andrej
Sali            
                            All Rights Reserved       
            
                                                      
            
                             Written by A. Sali       
            
                               with help from         
            
           B. Webb, M.S. Madhusudhan, M-Y. Shen, M.A.
Marti-Renom, 
                     N. Eswar, F. Alber, B. Oliva, A.
Fiser,       
                    R. Sanchez, B. Yerkovich, A.
Badretdinov,      
                      F. Melo, J.P. Overington, E.
Feyfant         
                 University of California, San
Francisco, USA      
                    Rockefeller University, New York,
USA          
                      Harvard University, Cambridge,
USA           
                   Imperial Cancer Research Fund,
London, UK       
              Birkbeck College, University of London,
London, UK   


Kind, OS, HostName, Kernel, Processor: 4, Linux
hertz.med.miami.edu 2.6.8-1.521 i686
Date and time of compilation         : 09/12/2004
21:24:59
Job starting time (YY/MM/DD HH:MM:SS): 2005/02/18 
09:22:45.082

getprog_531W> ROUTINE redefined:  special_restraints

check_ali___> Checking the sequence-structure
alignment. 

Implied target CA(i)-CA(i+1) distances longer than 
8.0 angstroms:

ALN_POS  TMPL  RID1  RID2  NAM1  NAM2     DIST
----------------------------------------------
END OF TABLE
 
 
delete__443_> Restraints marked for deletion were
removed.
              Total number of restraints before, now: 
  32023    29838
csrrng__299E> Atom index is out of bounds:     2393   
 2391
recover____E> ERROR_STATUS >= STOP_ON_ERROR:        1 
     1

Dynamically allocated memory at          finish
[B,kB,MB]:     15913527   15540.554    15.176
Starting time                                         
  : 2005/02/18  09:22:45.082
Closing time                                          
  : 2005/02/18  09:22:59.215
Total CPU time [seconds]                              
  :      11.92
----------------------------------------------------

Many thanks,
Amjad