[gmx-users] Bond interaction exclusions

Xu Dong Huang xudonghmath at gmail.com
Sun Feb 2 17:29:33 CET 2014

Dear all,

I am unclear about the bond exclusion properties within gromacs. Using a martini model system, what is the default behavior of setting 
;name	exclusions
eth      1

exclusions to 1? How do I find out what kind of interaction it is excluding? I am interested in finding out if this is excluding 1-3 interaction or 1-4 interaction. I guess what I also want to know is if my settings are including 1-4 bonded interactions or using only 1-3. 

Please let me know,

thank you. 

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