Dear All,First of all I want to tank Justin Lemkul and Thomas Piggot for their useful comments that helped me to resolve my previous questions regarding the construction of a lipid membrane.
Now I would like to post this question to this forum.I got through placing a putative ion channel into a DPPC bilayer. I managed to expand this sytem -> minimize it -> shrink it (several times) -> minimize it (several times) until I got an adequate lipid density.
After viewing the final results I noticed that there are several lipid molecules that are dangling at the end of the periodic box.
Is this normal, or I did something wrong?. If this is expected, How do I get rid of the dangling lipid molecules before I start a MD simulation?
Waiting for your replies... Sincerely, Ramon Garduno
<<attachment: ramon.vcf>>
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