Dear Jason, I know there are many residue naming of RNA/DNA depending on what software is used. (for example, Adenine: ADE, A, Ar, Ad,... )
I hope PyMOL would support any naming! Thanks, Keitaro 2010/12/11 Jason Vertrees <jason.vertr...@schrodinger.com>: > Hi Keitaro, > > Code has been started for "nucseq" and the shorthand "ns.". I think > it was not completed because at first glance it appears less than > straightforward: "ps." searches for the one-letter residue names, but > "ns." would have to map one-letter codes to those commonly used in the > data, "DA" "DT", etc. > > Cheers, > > -- Jason > > On Fri, Dec 10, 2010 at 1:48 AM, Keitaro Yamashita > <yamash...@castor.sci.hokudai.ac.jp> wrote: >> It's very useful. >> How about RNA/DNA sequence? >> >> Thanks in advance, >> >> Keitaro >> >> 2010/12/10 Jason Vertrees <jason.vertr...@schrodinger.com>: >>> Hi Julio, >>> >>>> I'm using PyMOL 1.3 and I would like to select one specific part of the >>>> molecule based on a peptide sequence that it is presented in protein. Is >>>> there any way to select subsequences in PyMOL? >>>> >>>> Protein sequence: >>>> >>>> ...SMVADLTQATFTKEGKTQKVVDVLDHDYVFDTFFK... >>>> >>>> Peptide: >>>> >>>> GKTQKV >>> >>> Use the 'ps.' (peptide sequence) modifier: >>> >>> select targetSeq, ps. GKTQKV >>> >>> Cheers, >>> >>> -- Jason >>> >>> -- >>> Jason Vertrees, PhD >>> PyMOL Product Manager >>> Schrodinger, LLC >>> >>> (e) jason.vertr...@schrodinger.com >>> (o) +1 (603) 374-7120 >>> >>> ------------------------------------------------------------------------------ >>> _______________________________________________ >>> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) >>> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >>> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net >>> >> >> ------------------------------------------------------------------------------ >> _______________________________________________ >> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net >> > > > > -- > Jason Vertrees, PhD > PyMOL Product Manager > Schrodinger, LLC > > (e) jason.vertr...@schrodinger.com > (o) +1 (603) 374-7120 > ------------------------------------------------------------------------------ Oracle to DB2 Conversion Guide: Learn learn about native support for PL/SQL, new data types, scalar functions, improved concurrency, built-in packages, OCI, SQL*Plus, data movement tools, best practices and more. http://p.sf.net/sfu/oracle-sfdev2dev _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
