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Publication for PPT-DB
Computational and Experimental Approaches to Reveal the Effects of Single Nucleotide Polymorphisms with Respect to Disease Diagnostics
[…] ding rates. Other servers for calculating protein folding rates include K-Fold , FOLD-RATE [,,], Prediction of long-range Contacts (PROFcon)  and Protein Property Prediction and Testing Database (PPT-DB) .Similarly, machine learning methods can also be used to predict protein aggregation properties. For example, the Protein Aggregation Prediction Server—Random Forest (ProA-RF) and ProA-SVM s […]
A Unified Multitask Architecture for Predicting Local Protein Properties
[…] st performing coiled coil predictor is an HMM that uses evolutionary information .For the coiled coil prediction task, we downloaded a dataset used in the training of the Paircoil algorithm from the PPT-DB database server. The data set contains 776 proteins. In each of these proteins, consecutive 7-residue stretches in the coiled coil region are labeled with the sequence “abcdefg”. The most freq […]
PROTEUS2: a web server for comprehensive protein structure prediction and structure based annotation
[…] ce unchanged. In the next step, the query sequence is aligned against a specially constructed database of 275 solved helical membrane proteins. This membrane helix database was also obtained from the PPT-DB. If a significant (Expect <10−10) match is found, the resulting alignment is used to transfer the known secondary structure of the template membrane molecule to the query protein using the prev […]
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