Hi Xiang, phenix.angle computes angle between two lines. Lines can be define two ways: - by two pairs of points with each pair defining two points that line passes through: phenix.angle model.pdb "chain A and (resseq 1 and name CA or resseq 2 and name CA)" "chain B and (resseq 1 and name CA or resseq 2 and name CA)" here atom selection "chain A and (resseq 1 and name CA or resseq 2 and name CA)" defines two points, and atom selection "chain B and (resseq 1 and name CA or resseq 2 and name CA)" defines another two points. - or alternatively you specify two sets of points (for example two helices) and the program will output the angle between the longest principal axes. Example: phenix.angle model.pdb "chain A" "chain B" here "chain A" defines first helix, and "chain B" defines second helix. Pavel On 12/16/14 6:58 AM, 李翔 wrote:
Hi,
I am trying to measure the angle between two DNA duplex domains. I used phenix.angle command for calculation. However, I get a wrong answer. Can anyone talk a little bit more details on this command please? I used a single strand DNA from each duplex to calculate the angle which I thought it might be working since it is calculating the axis.
Thanks for your help!
Sincerely, Xiang -- Li Xiang Department of chemistry, Purdue University Email：[email protected] mailto:[email protected]
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