AMBER Archive (2004)

Subject: Re: AMBER: prep file

From: Bill Ross (ross_at_cgl.ucsf.edu)
Date: Mon Jan 05 2004 - 17:49:14 CST

> I made a prepin file for a modified ASP residue. When I loaded into
> leap, I got the message " 0 pairs of atoms within potential bonding
> distance, 0 are not H-H pairs". What does this mean?

Possibly the coordinates in your prepin file are misaligned in
format or wrong. It sounds like the atoms are too far apart to
create any plausible bonds.

Bill Ross

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