AMBER Archive (2007)

Subject: Re: AMBER: ptraj

From: Thomas Cheatham III (tec3_at_utah.edu)
Date: Wed Jan 31 2007 - 18:03:00 CST

> i did hbond analysis using ptraj and i have some
> difficulties in understanding the output
> can somebody please tell me what does the angle column
> represent? it cant be the hydrogen bond angle,
> because the angles are very small, less than 40
> degrees, is it some kind of deviation from the 120
> cutoff? and how about the value in the parenthesis?

See:

  http://amber.ch.ic.ac.uk/archive/200503/0359.html
  http://amber.ch.ic.ac.uk/archive/all/7158.html

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