Pro-origami is a system for automatically generating protein structure cartoons. The cartoons are intended to make protein structure easy to interpret by laying out the secondary and super-secondary structure in two dimensions in a manner that makes the structure clear.
The cartoons are drawn in a style similar to those that might be drawn manually using a tool such as Charles Bond's TopDraw program, rather than the purely topological style such as those drawn by TOPS or PTGL, or the detailed hydrogen bonding diagrams drawn by HERA (PROMOTIF), from which the cartoons available in PDBsum are derived.
Pro-origami can also be used as a query interface to a substructure search program.
NEWS (30 June 2016): RCSB PDB rsync seems to be working again, cartoons for recent PDB files are being generated now.
NEWS (27 June 2016): There seems to be some trouble with the server updating the local copy of the PDB from the RCSB PDB rsync. Recent PDB files may not be available.
Pro-origami is part of a research project involving A. Stivala, Dr. A. Wirth, Prof. P. Stuckey (University of Melbourne, Australia), Dr. M. Wybrow and Prof. J. Whisstock (Monash University, Australia).
More information can be found on the about Pro-origami page.
If you use Pro-origami in your research, please cite:
A. Stivala, M. Wybrow, A. Wirth, J. Whisstock and P. Stuckey 2011 Automatic generation of protein structure cartoons with Pro-origami Bioinformatics 27(23):3315-3316 doi:10.1093/bioinformatics/btr575
If you use the SA Tableau Search feature, please also cite:
A. Stivala, P. Stuckey and A. Wirth 2010 Fast and accurate protein substructure searching with simulated annealing and GPUs BMC Bioinformatics 11:446
If you use the QP Tableau Search feature, please also cite:
A. Stivala, A. Wirth and P. Stuckey 2009 Tableau-based protein substructure search using quadratic programming BMC Bioinformatics, 10:153