Porter, PaleAle 4.0: high-accuracy prediction of protein secondary structure and relative solvent accessibility
نویسندگان
چکیده
منابع مشابه
Porter, PaleAle 4.0: high-accuracy prediction of protein secondary structure and relative solvent accessibility
SUMMARY Protein secondary structure and solvent accessibility predictions are a fundamental intermediate step towards protein structure and function prediction. We present new systems for the ab initio prediction of protein secondary structure and solvent accessibility, Porter 4.0 and PaleAle 4.0. Porter 4.0 predicts secondary structure correctly for 82.2% of residues. PaleAle 4.0's accuracy is...
متن کاملProtein Domain Prediction Using Profiles, Secondary Structure, Relative Solvent Accessibility, and Recursive Neural Networks
Protein domains are considered the basic unit of protein tertiary structure. We have developed a 1D-Recursive Neural Network (1D-RNN) called DOMpro that predicts protein domains using a combination of evolutionary information in the form of profiles and predicted secondary structure and relative solvent accessibility. DOMpro is trained and tested on a curated dataset derived from the CATH datab...
متن کاملPorter: a new, accurate server for protein secondary structure prediction
UNLABELLED Porter is a new system for protein secondary structure prediction in three classes. Porter relies on bidirectional recurrent neural networks with shortcut connections, accurate coding of input profiles obtained from multiple sequence alignments, second stage filtering by recurrent neural networks, incorporation of long range information and large-scale ensembles of predictors. Porter...
متن کاملPrediction of coordination number and relative solvent accessibility in proteins.
Knowing the coordination number and relative solvent accessibility of all the residues in a protein is crucial for deriving constraints useful in modeling protein folding and protein structure and in scoring remote homology searches. We develop ensembles of bidirectional recurrent neural network architectures to improve the state of the art in both contact and accessibility prediction, leveragi...
متن کاملPrediction of Protein Relative Solvent Accessibility with Support Vector Machines and Long-range Interaction
The prediction of protein relative solvent accessibility gives us helpful information for the prediction of tertiary structure of a protein. The SVMpsi method which uses support vector machines (SVMs) and the position specific scoring matrix (PSSM) generated from PSI-BLAST has been applied to achieve better prediction accuracy of the relative solvent accessibility. We have introduced a three di...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Bioinformatics
سال: 2013
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btt344