My software notes

January 21, 2006

pymol’s sequence mode

Filed under: pymol/ molmol — kpwu @ 5:05 am

seq-mode.jpg

Beginning from pymol 0.98, there is a new function called “sequence mode”

You can just click the pymol Tcl/Tk GUI toolbar [DISPLAY] -> [SEQUENCE] to enable the sequence mode, then you will see a sequence of you PDB file in the PyMOL viewer window. Seqeunce mode is a very powerful advantage, because you can use mose left button to select residues you have interests, then pymol automatically generetes a selection object for you, like what I show in this figure, I load 1PJW.pdb, enable the NMR ensemble structure view (set all_states, on), then enable the sequence mode, and select residues 21~ 37 quickly. The viewer window shows many purple dots which are the residues I selected.

See how amazning convenience the function is!

Enjoy PyMOL.

Last update: 2006/Jan/21

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2 Comments »

  1. Hi! Do you know how to process pseudo 3D through NMRDraw?
    Thank you so much!

    Comment by Dongmei — August 18, 2008 @ 7:18 pm | Reply

  2. Yes, but for Varian data only.

    Comment by kpwu — August 21, 2008 @ 11:48 am | Reply


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