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<P><FONT SIZE=2 FACE="Arial">Dear All,</FONT>
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<P><FONT SIZE=2 FACE="Arial">I have been using protein sequences of proteins with known structures (PDB databse) derived from the SEQRES records. </FONT>
<BR><FONT SIZE=2 FACE="Arial">But now that I need to run either DSSP or STRIDE on them.. I cannot map the secondary structure back to the sequence alignments because the SEQRES and ATOMS records do not agree on the residue number id.</FONT></P>
<P><FONT SIZE=2 FACE="Arial">So a residue numbered as 278 in SEQRES record is listed as 268 in the ATOMS record, messing up my alignments (I was using this numbering to map the secondary structure on to the sequence)</FONT></P>
<P><FONT SIZE=2 FACE="Arial">I have come across quite a bit of discussion in some mailing lists about the need & proposed methods of modification of the PDB files, so that they can be made consistent.</FONT></P>
<P><FONT SIZE=2 FACE="Arial">BUT .. </FONT>
<BR><FONT SIZE=2 FACE="Arial">Meanwhile can somebody suggest a method or resource .. which could either fix this dicrepency or maybe a round about way of taking care of this.</FONT></P>
<P><FONT SIZE=2 FACE="Arial">I guess with people working with stuctural/sequence mapping so often, some such fix would have definetly been devised by somebody.</FONT></P>
<P><FONT SIZE=2 FACE="Arial">I just want to be able to modify the residue numbers in the ATOMS record to match the SEQRES records or something to that effect. CIF does not work because it does not segregate by chain numbers/id.</FONT></P>
<P><FONT SIZE=2 FACE="Arial">Thanks for any input,</FONT>
<BR><FONT SIZE=2 FACE="Arial">-MAnisha</FONT>
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