NOTE (Nov.4th, 2011): I have made a new post showing how to generat such topology figure using online service provided by PDBSum.
Please click this post “[web server] protein structural analysis” to read new post.
Like what you see above, it’s a protein topology diagram (sample: 1PJW.pdb). Starting on Feb Sixth, 2006, the PDBSum (http://www.ebi.ac.uk/thornton-srv/databases/pdbsum/) announces the new service which provides the topology diagram of the coordinate file in Protein Data Bank (http://www.rcsb.org/pdb).
PDBsum intergrated many programs such as Procheck, WhatIF, Rasmol script and others. I really like the topology diagram generated by PDBSum, though I can’t find the source code from there. Hope they will release the source codes or compiled files for people who want to generate the topology diagrams of their fresh, before-submitting PDBs.