Re: [gmx-users] problem of getting with Dssp

I did not test it, but ftp://ftp.cmbi.ru.nl/pub/molbio/software/dsspcmbi.zip offers the sources and what I see from the readme.txt, it doesn't seem difficult to compile it yourself. -- ### Volker Wirth Center for Medical Physics and Technology Biophysics Grou

Re: [gmx-users] problem

sites out there, that might help to get started with gromacs, some are http://www2.umdnj.edu/~kerrigje/pdf_files/fwspidr_tutor.pdf http://md.chem.rug.nl/education/mdcourse/MDpract.html http://www.gromacs.org/documentation/reference/online.html -- ####### Volker Wirth C

[gmx-users] PDBs for mixed lipid bilayer/membrane

Hello list, first of all, my question in short: Does anyone know a source for PDB-files of mixed membranes (such as DMPC/DMPS or so)? And here more info: Within my diploma thesis I want to simulate a protein (ca. 20 residues) interacting with a lipid bilayer (not a transmembrane protein). Besides

[gmx-users] Atom CD in residue ILE 1 not found in rtp entry with 19 atoms

ur weekend, best Volker -- ####### Volker Wirth Center for Medical Physics and Technology Biophysics Group FAU Erlangen-Nuremberg Email: vwirth%at%biomed.uni-erlangen.de ### ___ gmx-users mailing listgmx

[gmx-users] Including itp files

t these files involved into my simulation? I hope, you understand my problem, as for myself it is not yet really clear, what e.g. the itp file will actually do within the process... Best Volker -- ### Volker Wirth Center for Medical Physics and Technology Biophysics Gr

Re: [gmx-users] membrane with OPLS force field

DMPC, DMPS and mixed bilayers) won't be possible and in the moment the idea is to use the paper's approach to get at least a simulation with **PC lipids. -- ### Volker Wirth Center for Medical Physics and Technology Biop

Re: [gmx-users] membrane with OPLS force field

gt; > ___ > gmx-users mailing listgmx-users@gromacs.org > http://www.gromacs.org/mailman/listinfo/gmx-users > Please search the archive at http://www.gromacs.org/search before posting! > Please do

[gmx-users] number of coordinates ... does not match - 55 coordinates too much

t match topology (topol_solvated.top, 25906) --- I cannot find out, where 55 coordinates should come from! Did anyone encounter such a problem before and can tell me what the reason is? Thanks and have a nice weekend Volker -- ####