scratch.proteomics.ics.uci.edu
Scratch Protein Predictor
http://scratch.proteomics.ics.uci.edu/explanation.html
SCRATCH: A Quick Description. Download SSpro 5.2 (free for academic use). SSpro8 is an extension to SSpro. Instead of using three classes (helix, strand and the rest) to assign the secondary structure of a protein, SSpro8 adopts the full DSSP 8-class output classification:. I: pi-helix (extremely rare). SSpro8 is a completely different system from SSpro. Their results may not match. Download SSpro8 5.2 (free for academic use). Download ACCpro 5.2 (free for academic use). DOMpro predicts domain locations ...
ics.uci.edu
Prediction of Protein Stability Changes upon Mutations
http://www.ics.uci.edu/~baldig/mutation.html
MUpro: Prediction of Protein Stability Changes for Single-Site Mutations from Sequences. Protein sequence(one plain sequence, no headers):. Specify the protein structure file if available (optional):. Download MUpro Source Code, Software and Datasets. 1] J Cheng, A. Randall, and P. Baldi. Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines. Proteins: Structure, Function, Bioinformatics, vol. 62, no. 4, pp. 1125-1132, 2006. [PDF]. University of California Irvine.
arlorandall.com
Arlo Randall - Servers
http://www.arlorandall.com/servers.html
IGB Protein Structure Software and Servers. Home page for all IGB structural proteomics predictors. Data-driven method to predict the 3D structure of small molecules from their 1D/2D representations. Effective protein model selection using a structure-based energy function resistant to blunders. A novel machine learning approach for the fasta and accurate prediction of side-chain conformations. Transmembrane beta-barrel secondary structure, beta-contact, and tertiary structure predictor.
