Re: [gmx-users] packing lipids

2012-09-24 Thread Shima Arasteh
Thanks Peter. :-)   Sincerely, Shima - Original Message - From: Peter C. Lai To: Discussion list for GROMACS users Cc: Sent: Monday, September 24, 2012 6:26 PM Subject: Re: [gmx-users] packing lipids What does trace show? (Trace is supposed to draw a vertex between each alpha carbon

Re: [gmx-users] packing lipids

2012-09-24 Thread Shima Arasteh
 Thanks Justin. :-) Sincerely, Shima - Original Message - From: Justin Lemkul To: Discussion list for GROMACS users Cc: Sent: Monday, September 24, 2012 6:20 PM Subject: Re: [gmx-users] packing lipids On 9/24/12 10:48 AM, Shima Arasteh wrote: > > >  In fact, the

Re: [gmx-users] packing lipids

2012-09-24 Thread Peter C. Lai
> > Sincerely, > Shima > > > - Original Message - > From: Justin Lemkul > To: Shima Arasteh ; Discussion list for GROMACS > users > Cc: > Sent: Monday, September 24, 2012 2:09 PM > Subject: Re: [gmx-users] packing lipids > > > > On 9/24/12 6:22

Re: [gmx-users] packing lipids

2012-09-24 Thread Justin Lemkul
On 9/24/12 10:48 AM, Shima Arasteh wrote: In fact, the structure visualized by VMD and choosing line as draw style is ok, but the second structure of protein ( I mean the choosing ribbons) shows a broken structure. How come? what does it mean? This is really more of a VMD question (the

Re: [gmx-users] packing lipids

2012-09-24 Thread Shima Arasteh
To: Shima Arasteh ; Discussion list for GROMACS users Cc: Sent: Monday, September 24, 2012 2:09 PM Subject: Re: [gmx-users] packing lipids On 9/24/12 6:22 AM, Shima Arasteh wrote: > > Dear gmx users, > > Is it  possible that the protein got broken during shrinking iteration o

Re: [gmx-users] packing lipids

2012-09-24 Thread Justin Lemkul
On 9/24/12 6:22 AM, Shima Arasteh wrote: Dear gmx users, Is it possible that the protein got broken during shrinking iteration of packing lipids around the protein? Only if it were broken to begin with. This is a rather vague statement; if you need further help, you will have to be a

[gmx-users] packing lipids

2012-09-24 Thread Shima Arasteh
Dear gmx users, Is it  possible that the protein got broken during shrinking iteration of packing lipids around the  protein? Sincerely, Shima -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-users * Please search the archive at http://www.groma