normal Disulfide Bond in Martini Force Field

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9 years 5 months ago #4467 by initram
Disulfide Bond in Martini Force Field was created by initram
Hi,

I have one disulfide bond in my protein but I am not aware of systematic treatment of these bonds in Martini FF.
Is there a "correct" approach for disulfide bond?

Thank you very much

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9 years 3 months ago #4527 by Pim
Replied by Pim on topic Disulfide Bond in Martini Force Field
If you generate your protein topology using martinize.py you can specify disulfide bonds using the flag -cys (see martinize.py help for syntax).

I think it makes a bond with d=0.39 nm and force constant = 5000 kJ/mol,
but doesn't generate angles or dihedrals.

There is no specific treatment in Elnedyn if that's what you are using for your protein, you still need the bond in your topology.

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