Illustrating EFMO fragmentation with Jmol

On Tuesday I am giving a talk and I want to illustrate fragmentation of a protein for the EFMO method.  So I used Jmol to create this movie which I will embed in a Powerpoint slide

The underlying Jmol script is here.  Just paste it in to the Jmol Script Console and record the screen (I used Screenflow, but screencast-o-matic is a free alternative).

	background white;
	load /Users/jan/Dropbox/presentation/BBL/1L2Y.pdb;
	reset;
	center {-1.231 1.8259997 0.04649973};rotate z 2.0; zoom 84.74; translate x 0.04; translate y 0.07;
	spin y;delay 10;spin off;delay 1;
	select all;color atoms amino;delay 1;spin y;delay 10;spin off;delay 3;
	display 1;delay 5;
	display 2;delay 1;
	display 3;delay 1;
	display 4;delay 1;
	display 5;delay 0.5;
	display 6;delay 0.5;
	display 7;delay 0.5;
	display 8;delay 0.5;
	display 9;delay 0.5;
	display 10;delay 0.5;
	display 11;delay 0.5;
	display 12;delay 0.5;
	display 13;delay 0.5;
	display 14;delay 0.5;
	display 15;delay 0.5;
	display 16;delay 0.5;
	display 17;delay 0.5;
	display 18;delay 0.5;
	display 19;delay 5;
	display 18,19;delay 10;
	display 17,19;delay 10;
	display 17,18,19;delay 1;
	display 16,17,18,19;delay 0.5;
	display 15,16,17,18,19;delay 0.5;
	display 14,15,16,17,18,19;delay 0.5;
	display 13,14,15,16,17,18,19;delay 0.5;
	display 12,13,14,15,16,17,18,19;delay 0.5;
	display 11,12,13,14,15,16,17,18,19;delay 0.5;
	display 10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 7,8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 6,7,8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 5,6,7,8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	display 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19;delay 0.5;
	delay 3; select all; color atoms cpk; delay 1; spin y

view raw Jmol script for fragmentation of protein hosted with ❤ by GitHub

This work is licensed under a Creative Commons Attribution 3.0 Unported License.