AMBER Archive (2009)

Subject: Re: [AMBER] "Could not find bond parameter"

From: George Tzotzos (
Date: Fri Jan 23 2009 - 12:16:34 CST

Hi everybody,

I am experiencing the following problem when trying to save the parameter file of my protein.

<saveamberparm> generates the following output:

Could not find bond parameter for: SH - SH

Building angle parameters.
Could not find angle parameter: HS - SH - SH
Could not find angle parameter: SH - SH - CT

I'm dealing with a small protein with 3 disulfide bonds.

I'm using leaprc.ff99SB as a forcefield

Any help in resolving this problem would be greatly appreciated


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