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Fwd: can't write the model structure

Forwarding to list.

----- Forwarded message from Sherin Yang <> -----

From: "Sherin Yang" <>
To: <>
Subject: can't write the model structure
Date: Sat, 6 Sep 2003 02:17:46 +0800
X-Mailer: Microsoft Outlook Express 6.00.2800.1106

Hi, all

I have write a TOP script and want to align a sequence with a structure using ALIGN2D. but I can't get the proper alignment result. The structure's sequence isn't contained in the alignment file. And the log file didn't inform any error information.
The following is the TOP scrip, and the attachment is the  PDB file.

The 1CF8 contains two chains, L and H. Maybe there is something wrong in "MODEL_SEGMENT='1:L' 'X:L' "?

########################################################
READ_MODEL FILE = '1CF8.pdb', MODEL_SEGMENT='1:L' 'X:L' 

SEQUENCE_TO_ALI ALIGN_CODES = '1CF8L'

READ_ALIGNMENT FILE = query_mod.ali',  ALIGN_CODES = 'query' 

ALIGN2D  

WRITE_ALIGNMENT FILE = 'align2d.ali', ALIGNMENT_FORMAT = 'PIR'
###########################################################

Thank you !

Sherin


----- End forwarded message -----

Attachment: 1CF8.pdb
Description: Protein Databank data