Dear all,
I just did a modelling based on a model(1L9H).
My align2d.top is :
protein:~/syliu>more align2d.top INCLUDE READ_MODEL FILE = '1L9H' SEQUENCE_TO_ALI ALIGN_CODES = '1L9H' READ_ALIGNMENT FILE = 'tget.ali', ALIGN_CODES = ALIGN_CODES 'tget', ADD_SEQUENCE = on ALIGN2D WRITE_ALIGNMENT FILE='tget-1L9H.ali', ALIGNMENT_FORMAT = 'PIR' WRITE_ALIGNMENT FILE='tget-1L9H.pap', ALIGNMENT_FORMAT = 'PAP'
My target sequence is :
protein:~/syliu>more tget.ali >P1;tget sequence:tget:::::::0.00: 0.00 MNTSAPPAVSPNITVLAPGKGPWQVAFIGITTGLLSLATVTGNLLVLISFKVNTELKTVNNYFLLSLACADLIIGTFSMNLYTTYLLMGHWALGTLACDLWLAL DYVASNASVMNLLLISFDRYFSVTRPLSYRAKRTPRRAALMIGLAWLVSFVLWAPAILFWQYLVGERTVLAGQCYIQFLSQPIITFGTAMAAFYLPVTVMCTLY WRIYRETENRARELAALQGSETPGKGGGSSSSSERSQPGAEGSPETPPGRCCRCCRAPRLLQAYSWKEEEEEDEGSMESLTSSEGEEPGSEVVIKMPMVDPEAQ APTKQPPRSSPNTVKRPTKKGRDRAGKGQKPRGKEQLAKRKTFSLVKEKKAARTLSAILLAFILTWTPYNIMVLVSTFCKDCVPETLWELGYWLCYVNSTINPM CYALCNKAFRDTFRLLLLCRWDKRRWRKIPKRPGSVHRTPSRQC*
When I do mod align2d.top , the modeller ends successfully and output a "STOP". But I got a log:
MODELLER 6v2, 17 Feb 2002
PROTEIN STRUCTURE MODELLING BY SATISFACTION OF SPATIAL RESTRAINTS
Copyright(c) 1989-2002 Andrej Sali All Rights Reserved
Written by A. Sali with help from A. Fiser, R. Sanchez, M.A. Marti-Renom, B. Jerkovic, A. Badretdinov, F. Melo, J.P. Overington & E. Feyfant 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 protein 2.4.18-14 i686 Date and time of compilation : 07/16/2002 11:42:16 Job starting time (YY/MM/DD HH:MM:SS): 2004/07/06 23:22:21.841
dispers_247E> Internal error: 641 642 recover____E> ERROR_STATUS >= STOP_ON_ERROR: 1 1
Dynamically allocated memory at finish [B,kB,MB]: 25421225 24825.414 24.244 Starting time : 2004/07/06 23:22:21.841 Closing time : 2004/07/06 23:37:12.289 Total CPU time [seconds] : 832.85
So, what is the problem on the error information ? (dispers_247E> Internal error: 641 642)?
Shiyong Liu