Thank you so much Thomas and Marlene, yea I missed the email from Thomas the first time. Your suggestion solved my problem. I appreciate your help very much,
Remie On Aug 8, 2014, at 7:35 PM, Marlene Holder <[email protected]> wrote: > Dear Remie, > > the first A is the segment identifier and the second A is the chain > identifier. You might have missed it but there was an email today from Thomas > Holder solving exactly this problem. See below: > > On 07.08.2014 19:40, Thomas Holder wrote: >> Hi Remie, >> >> PyMOL by default sorts atoms based on their identifiers (segment, chain, >> residue number). Could it be that your file has segment identifiers? Try >> this after loading your file: >> >> PyMOL>alter all, segi="" >> PyMOL>sort >> >> Cheers, >> Thomas > > Read about the PyMOL slash notation here: > http://www.pymolwiki.org/index.php/Selection_Macros > > Cheers, > Marlene > > > > > On 08.08.2014 18:32, Avinash Punekar wrote: >> Dear Remie, >> >> May be you have saved the coordinates as A.pdb? In that case the first /A/ >> will be the file name followed by the second /A/ for the protein chain. >> Else, somewhere in the pdb you may have an empty atom record, which is very >> unlikely. >> >> Best regards, >> Avinash
