[gmx-users] Query in protein insertion in membrane

[Priya Das]

Dear Sir,
Yes it is a large protein. Should i increase the cut off radius or should i
decrease the scaling factor to acheive a good insertion.
On Dec 4, 2014 3:20 AM, "Justin Lemkul" <jalemkul at vt.edu> wrote:

>
>
> On 12/3/14 7:21 AM, Priya Das wrote:
>
>> Dear All,
>>
>> i have inserted protein in infalted lipid bilayer. (512 lipids)
>> I need to delete almost 100 lipids.
>> So should i reduce the scaling factor or increase the cutoff radius in
>> this
>> command.
>>
>>
> Why is that a problem?  Presumably you just have a very large protein.
>
> -Justin
>
>  perl inflategro.pl system.gro 4 DPPC 14 system_inflated.gro 5 area.dat
>>
>>
>>
> --
> ==================================================
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> Justin A. Lemkul, Ph.D.
> Ruth L. Kirschstein NRSA Postdoctoral Fellow
>
> Department of Pharmaceutical Sciences
> School of Pharmacy
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> University of Maryland, Baltimore
> 20 Penn St.
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>
> jalemkul at outerbanks.umaryland.edu | (410) 706-7441
> http://mackerell.umaryland.edu/~jalemkul
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