[gmx-users] Ryckeart Bellemans parameters for Fe coupled to cystines

[Dallas Warren]

>this additional Fe .  Specifying the dihedral as a
>proper dihedral (type 1) always leads to links error
>with the hydrogens of cystines rotating more than 30
>degrees. Can I specify dihedral as proper(type 1) in
>place of RB type (type 3).

In some cases this can be due to interactions between the hydrogen and 
another atom in the 4 position.  The interactions are too strong for what 
they actually should be, hence the LINCS error that you get.  Somewhere (I 
think in the manual or may be somewhere else) it mentions that you can 
remove the 1-4 interactions (pairs) to stop that happening.

Catch ya,

Dr. Dallas Warren
Research Fellow
Department of Pharmaceutical Biology and Pharmacology
Victorian College of Pharmacy, Monash University
381 Royal Parade, Parkville VIC 3010
dallas.warren at vcp.monash.edu.au
+61 3 9903 9083
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