Re: [ccp4bb] Consensus on modeling unidentifiable lipids and detergents in membrane protein structures?

2014-11-07 Thread Oliver Clarke
Thanks Nat, this is exactly what I was looking for and it makes perfect sense! To make this more convenient when one has many unidentified densities of varying lengths, I've written a little extension for Coot that generates a new UNL residue with a specified number of carbons, makes restraints

Re: [ccp4bb] Consensus on modeling unidentifiable lipids and detergents in membrane protein structures?

2014-11-07 Thread Oliver Clarke
My apologies - there was an error in that script, I forgot to delete prodrg droppings - this one is better: menu=coot_menubar_menu(Custom) def make_alkyl_chain(): def make_alkyl_chain_length_n(n): smiles_string=int(n)*c new_molecule_by_smiles_string(smiles_string,smiles_string)

[ccp4bb] FW: post-doc opening at NCNR/NIST

2014-11-07 Thread Kushol Gupta
Hi all, See below and contact Joseph Curtis (joseph.cur...@nist.gov) for more information. Kushol Kushol Gupta, Ph.D. Research Associate - Van Duyne Group Department of Biochemistry and Biophysics Perelman School of Medicine at The University of Pennsylvania

[ccp4bb] Aquarius2 ?

2014-11-07 Thread Guenter Fritz
Dear colleagues, can somebody give me a hint, whether the program AQUARIUS2 or a similar / successor program is available somewhere? Thanks a lot in advance! Best regards, Guenter

Re: [ccp4bb] Aquarius2 ?

2014-11-07 Thread Tim Gruene
Dear Guenter, my ixquick search for 'aquarius2 program protein' had a hit at www.kuhnlab.bmb.msu.edu/publication_papers/pdf/raymerjmb1997.pdf that mentions aquarius2 and sounds as though their program consolv (www.kuhnlab.bmb.msu.edu) was a replacement. Regards, Tim On 11/07/2014 06:47 PM,

Re: [ccp4bb] Aquarius2 ?

2014-11-07 Thread Guenter Fritz
Hi Tim, thanks for pointing me to that. Guenter Dear Guenter, my ixquick search for 'aquarius2 program protein' had a hit at www.kuhnlab.bmb.msu.edu/publication_papers/pdf/raymerjmb1997.pdf that mentions aquarius2 and sounds as though their program consolv (www.kuhnlab.bmb.msu.edu) was a