Prediction of beta-turns in proteins from multiple alignment using neural network.

PubWeight™: 1.57‹?› | Rank: Top 4%

🔗 View Article (PMC 2312433)

Published in Protein Sci on March 01, 2003

Authors

Harpreet Kaur1, Gajendra Pal Singh Raghava

Author Affiliations

1: Institute of Microbial Technology, Sector 39A, Chandigarh, India.

Articles citing this

Identification of DNA-binding proteins using support vector machines and evolutionary profiles. BMC Bioinformatics (2007) 1.59

VirulentPred: a SVM based prediction method for virulent proteins in bacterial pathogens. BMC Bioinformatics (2008) 1.24

Identification of ATP binding residues of a protein from its primary sequence. BMC Bioinformatics (2009) 1.15

Identification of helix capping and b-turn motifs from NMR chemical shifts. J Biomol NMR (2012) 1.12

A neural-network based method for prediction of gamma-turns in proteins from multiple sequence alignment. Protein Sci (2003) 1.11

ESLpred2: improved method for predicting subcellular localization of eukaryotic proteins. BMC Bioinformatics (2008) 1.07

NetTurnP--neural network prediction of beta-turns by use of evolutionary information and predicted protein sequence features. PLoS One (2010) 1.01

Predicting beta-turns and their types using predicted backbone dihedral angles and secondary structures. BMC Bioinformatics (2010) 1.01

Machine learning approach to predict protein phosphorylation sites by incorporating evolutionary information. BMC Bioinformatics (2010) 1.00

Prediction of GTP interacting residues, dipeptides and tripeptides in a protein from its evolutionary information. BMC Bioinformatics (2010) 0.99

BhairPred: prediction of beta-hairpins in a protein from multiple alignment information using ANN and SVM techniques. Nucleic Acids Res (2005) 0.98

Prediction of beta-turns at over 80% accuracy based on an ensemble of predicted secondary structures and multiple alignments. BMC Bioinformatics (2008) 0.97

Prediction of FAD interacting residues in a protein from its primary sequence using evolutionary information. BMC Bioinformatics (2010) 0.96

Structural determinants at the interface of the ARC2 and leucine-rich repeat domains control the activation of the plant immune receptors Rx1 and Gpa2. Plant Physiol (2013) 0.93

Identification of mannose interacting residues using local composition. PLoS One (2011) 0.92

Improving the performance of β-turn prediction using predicted shape strings and a two-layer support vector machine model. BMC Bioinformatics (2011) 0.89

Experimental and computational mutagenesis to investigate the positioning of a general base within an enzyme active site. Biochemistry (2014) 0.82

Identification of regions involved in enzymatic stability of peptide deformylase of Mycobacterium tuberculosis. J Bacteriol (2005) 0.82

Features analysis for identification of date and party hubs in protein interaction network of Saccharomyces Cerevisiae. BMC Syst Biol (2010) 0.81

Prediction of vitamin interacting residues in a vitamin binding protein using evolutionary information. BMC Bioinformatics (2013) 0.80

Evaluation of protein dihedral angle prediction methods. PLoS One (2014) 0.80

Effective identification of Gram-negative bacterial type III secreted effectors using position-specific residue conservation profiles. PLoS One (2013) 0.79

Structure-function analysis of the filamentous actin binding domain of the neuronal scaffolding protein spinophilin. FEBS J (2007) 0.78

Predicting turns in proteins with a unified model. PLoS One (2012) 0.78

Three Dimensional Structure Prediction of Fatty Acid Binding Site on Human Transmembrane Receptor CD36. Bioinform Biol Insights (2013) 0.78

Type I and II β-turns prediction using NMR chemical shifts. J Biomol NMR (2014) 0.78

Identification of a novel effector domain of BIN1 for cancer suppression. J Cell Biochem (2011) 0.77

ProDaMa: an open source Python library to generate protein structure datasets. BMC Res Notes (2009) 0.76

A flanking gene problem leads to the discovery of a Gprc5b splice variant predominantly expressed in C57Bl/6J mouse brain and in maturing neurons. PLoS One (2010) 0.76

Stability of an amphipathic helix-hairpin surfactant peptide in liposomes. Biochim Biophys Acta (2016) 0.75

A novel hybrid method of beta-turn identification in protein using binary logistic regression and neural network. EXCLI J (2012) 0.75

Predicting β-turns in protein using kernel logistic regression. Biomed Res Int (2013) 0.75

Articles cited by this

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res (1997) 665.31

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers (1983) 99.69

Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins. J Mol Biol (1978) 33.47

Protein secondary structure prediction based on position-specific scoring matrices. J Mol Biol (1999) 33.07

Prediction of protein secondary structure at better than 70% accuracy. J Mol Biol (1993) 17.53

The anatomy and taxonomy of protein structure. Adv Protein Chem (1981) 16.85

Conformational parameters for amino acids in helical, beta-sheet, and random coil regions calculated from proteins. Biochemistry (1974) 12.07

PHD: predicting one-dimensional protein structure by profile-based neural networks. Methods Enzymol (1996) 9.10

PROMOTIF--a program to identify and analyze structural motifs in proteins. Protein Sci (1996) 6.76

Predicting the secondary structure of globular proteins using neural network models. J Mol Biol (1988) 5.13

Analysis and prediction of the different types of beta-turn in proteins. J Mol Biol (1988) 4.88

Turns in peptides and proteins. Adv Protein Chem (1985) 4.05

Prediction of protein structural classes. Crit Rev Biochem Mol Biol (1995) 3.90

Prediction of beta-turns. Biophys J (1979) 2.71

Alignments grow, secondary structure prediction improves. Proteins (2002) 2.56

Prediction of tight turns and their types in proteins. Anal Biochem (2000) 1.57

Prediction of the location and type of beta-turns in proteins using neural networks. Protein Sci (1999) 1.30

Beta-and gamma-turns in proteins revisited: a new set of amino acid turn-type dependent positional preferences and potentials. J Biosci (2000) 1.29

Classification and prediction of beta-turn types. J Protein Chem (1997) 1.11

An evaluation of beta-turn prediction methods. Bioinformatics (2002) 1.09

Prediction of beta-turns. J Pept Res (1997) 0.98

Role of amino acid residues at turns in the conformational stability and folding of human lysozyme. Biochemistry (2000) 0.96

Articles by these authors

A neural-network based method for prediction of gamma-turns in proteins from multiple sequence alignment. Protein Sci (2003) 1.11

Open source drug discovery--a new paradigm of collaborative research in tuberculosis drug development. Tuberculosis (Edinb) (2011) 1.11

lncRNome: a comprehensive knowledgebase of human long noncoding RNAs. Database (Oxford) (2013) 1.02

Genome sequence of the oleaginous red yeast Rhodosporidium toruloides MTCC 457. Eukaryot Cell (2012) 1.00

Draft Genome Sequence of the Type Species of the Genus Citrobacter, Citrobacter freundii MTCC 1658. Genome Announc (2013) 0.99

Draft Genome Sequence of the 2-Chloro-4-Nitrophenol-Degrading Bacterium Arthrobacter sp. Strain SJCon. Genome Announc (2013) 0.90

EGPred: prediction of eukaryotic genes using ab initio methods after combining with sequence similarity approaches. Genome Res (2004) 0.84

Genome sequence of the nitroaromatic compound-degrading Bacterium Burkholderia sp. strain SJ98. J Bacteriol (2012) 0.84

Genome annotation of Burkholderia sp. SJ98 with special focus on chemotaxis genes. PLoS One (2013) 0.82

Draft genome sequence of salt-tolerant yeast Debaryomyces hansenii var. hansenii MTCC 234. Eukaryot Cell (2012) 0.82

Draft genome sequence of the nitrophenol-degrading actinomycete Rhodococcus imtechensis RKJ300. J Bacteriol (2012) 0.80

Draft Genome Sequence of Streptomyces gancidicus Strain BKS 13-15. Genome Announc (2013) 0.80

Prediction of C alpha-H...O and C alpha-H...pi interactions in proteins using recurrent neural network. In Silico Biol (2006) 0.77

ω-Turn: a novel β-turn mimic in globular proteins stabilized by main-chain to side-chain C−H···O interaction. Proteins (2014) 0.77

Draft Genome Sequence of Amycolatopsis decaplanina Strain DSM 44594T. Genome Announc (2013) 0.76

Genome sequence of the marine bacterium Marinilabilia salmonicolor JCM 21150T. J Bacteriol (2012) 0.76

Genome Sequence of the "Indian Bison Type" Biotype of Mycobacterium avium subsp. paratuberculosis Strain S5. Genome Announc (2013) 0.76

Draft Genome Sequence of Rhodococcus triatomae Strain BKS 15-14. Genome Announc (2013) 0.75

Draft Genome Sequence of Acinetobacter baumannii Strain MSP4-16. Genome Announc (2013) 0.75

Genome sequence of the halotolerant bacterium Imtechella halotolerans K1T. J Bacteriol (2012) 0.75

Draft Genome Sequence of Rhodococcus ruber Strain BKS 20-38. Genome Announc (2013) 0.75

Draft Genome Sequence of Rhodococcus qingshengii Strain BKS 20-40. Genome Announc (2013) 0.75

Computer-Aided Virtual Screening and Designing of Cell-Penetrating Peptides. Methods Mol Biol (2015) 0.75