On Wednesday 23 August 2006 19:25, Rajarshi Guha wrote:
> Hi, I'm using ProteinBuilderTool to create a peptide sequence like
>
> BioPolymer pepseq = ProteinBuilderTool.createProtein("ACDEFGH");
>
> However, when I do
>
> Collection aas = peptide.getMonomerNames();
>
> and then print out the monomer names I get an extra blank entry. Is this
> supposed to be the case?Yes, I think so. This blank entry is a container for all atoms that do not belong to a residue (e.g. ligands, water, metals...) > Also, in such a sequence is there any way to determine the C-terminal > and N-terminal residues? Or is it always the case that the left most > residue (i.e., element 0 in the monomer list) the N-terminal and the > last one the C-terminal? The AminoAcid class should have get methods for that. Please verify that they work for you. Egon -- [EMAIL PROTECTED] Cologne University Bioinformatics Center (CUBIC) Blog: http://chem-bla-ics.blogspot.com/ GPG: 1024D/D6336BA6 ------------------------------------------------------------------------- Using Tomcat but need to do more? Need to support web services, security? Get stuff done quickly with pre-integrated technology to make your job easier Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642 _______________________________________________ Cdk-user mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/cdk-user
