Prediction of the parallel/antiparallel orientation of beta-strands using amino acid pairing preferences and support vector machines

DOI10.1016/J.JTBI.2009.12.019MaRDI QIDQ1715345zbMATH OpenOpenAlexWikidataFDO

Authors Ning Zhang, Guangyou Duan, Shan Gao, Tao Zhang, Ji-Shou Ruan

Publication date 4 February 2019

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.jtbi.2009.12.019

zbMATH Keywords

machine learningprotein structureencoding matrix\(\beta\)-sheetstrand-to-strand interactions

Mathematics Subject Classification ID

Learning and adaptive systems in artificial intelligence (68T05) Protein sequences, DNA sequences (92D20)

Recommendations

• Anti-parallel Coiled Coils Structure Prediction by Support Vector Machine Classification
• \(\gamma\)-Turn types prediction in proteins using the support vector machines
• BetaSCP2: a program for the optimal prediction of side-chains in proteins
• Predicting torsion angles in amino acid protein sequences based on a Bayesian classification procedure on Markov chains

Cites work

• scientific article; zbMATH DE number 1332320 (Why is no real title available?)
• scientific article; zbMATH DE number 823069 (Why is no real title available?)
• scientific article; zbMATH DE number 2200689 (Why is no real title available?)
• Identify catalytic triads of serine hydrolases by support vector machines
• The modified Mahalanobis discriminant for predicting outer membrane proteins by using Chou's pseudo amino acid composition
• Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes
• \(\gamma\)-Turn types prediction in proteins using the support vector machines

Cited in

(6)

• Nucleotide's bilinear indices: novel bio-macromolecular descriptors for bioinformatics studies of nucleic acids. I: Prediction of paromomycin's affinity constant with HIV-1 \(\Psi\)-RNA packaging region
• Anti-parallel Coiled Coils Structure Prediction by Support Vector Machine Classification
• Studies on the rules of \(\beta\)-strand alignment in a protein \(\beta\)-sheet structure
• Prediction of \(\beta\)-turn types in protein by using composite vector
• Prediction of the structural motifs of sandwich proteins
• Ranking beta sheet topologies with applications to protein structure prediction

Describes a project that uses

Uses Software

• GenThreader
• FoldRate
• PFRES
• FUGUE
• PISCES
• Cell-PLoc
• LIBSVM

This page was built for publication: Prediction of the parallel/antiparallel orientation of beta-strands using amino acid pairing preferences and support vector machines

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q1715345)