Hi Modellers!

I have the pdb format problem. I have the same problem with Stephane Coillet-Matillon's error written at 19 Mar 2002. Eric Feyfant replied it was a chain identifier problem. " I corrected Stephane error. It was a chain identifier problem. The chain was specified in the pdb but not in the top file, and Modeler could not extrapolate. Eric" But I don't know how to correct this problem. How to solve this problem?

Thanks, Ahrim

The error messages is like this

" Read the alignment from file : acc_ipn1.ali Total number of alignment positions: 375

# Code #_Res #_Segm PDB_code Name ------------------------------------------------------------------------------- 1 1QJF 331 1 1QJF 2 ACCO 314 1 ACCO unknown TOP_________> 121 107 CHECK_ALIGNMENT

check_a_343_> >> BEGINNING OF COMMAND openf5__224_> Open 11 OLD SEQUENTIAL ./1QJF.pdb rdpdb___303E> No atoms were read from the specified input PDB file: 1) Possibly because an incorrect/non-existent PDB file is specif ied. 2) Possibly because the segment is specified incorrectly in the alignment file or by the TOP variable MODEL_SEGMENT. That is,

the beginning residue number and/or chain id in MODEL_SEGMENT

may not be found in the input PDB file; MODEL_SEGMENT: 1: To find out more, switch on maximal output by 'SET OUTPUT_CONTROL = 1 1 1 1 2' rdabrk__288W> Protein not accepted: 1 rdabrk__290E> Number of residues in the alignment and pdb files are different: 331 0 For alignment entry: 1 recover____E> ERROR_STATUS >= STOP_ON_ERROR: 1 1 "

YOO, AHRIM Process System Lab. Department of Chemical Engineering, Korea University --------------------------------------------------------------------------------------- Don't believe what your eyes are telling you. All they show is limitation. Look with your understanding, find out what you already know, and you'll see the way to fly.