Dihedral angle detection software tools | Protein structure data analysis

The prediction of the secondary structure of a protein is a critical step in the prediction of its tertiary structure and, potentially, its function. Moreover, the backbone dihedral angles, highly correlated with secondary structures, provide…

The prediction of the secondary structure of a protein is a critical step in the prediction of its tertiary structure and, potentially, its function. Moreover, the backbone dihedral angles, highly correlated with secondary structures, provide crucial information about the local three-dimensional structure. Source text: Kountouris and Hirst, 2009.

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Allows prediction of secondary structure, accessible surface area and dihedral…

Allows prediction of secondary structure, accessible surface area and dihedral angles. SPINE-X is a secondary structure prediction method consisting of six steps of iterative prediction of secondary…

Performs task of backbone structure determination of a protein primarily based…

Performs task of backbone structure determination of a protein primarily based on residual dipolar couplings (RDCs) data. REDCRAFT is an open source analysis tool that accommodates the analysis of…

Provides processing and protonation of molecules analyses. Mollib is a command…

Provides processing and protonation of molecules analyses. Mollib is a command line program and a Python library developed to validate, improve quality analysis and manipulate molecular structures…

Predicts different sets of structural protein properties. SPIDER is an…

Predicts different sets of structural protein properties. SPIDER is an iterative deep-learning neutral network. It obtains secondary structure, torsion angles, Cα−atom based angles and dihedral…

Calculates protein torsion angle prediction. DNTor is a deep learning machine…

Calculates protein torsion angle prediction. DNTor is a deep learning machine that considers four methods: Deep Neural Network, Deep Recurrent Neural Network, Deep Restricted Boltzmann Machines and…

Consists of rotamer frequencies and their mean dihedral angles and variances as…

Consists of rotamer frequencies and their mean dihedral angles and variances as a function of the backbone dihedral angles. Rotamer Libraries has been developed using adaptive kernel density…

A web server for predicting protein torsion angle restraints. PREDITOR accepts…

A web server for predicting protein torsion angle restraints. PREDITOR accepts sequence and/or chemical shift data as input and generates torsion angle predictions (with predicted errors) for phi,…

Predicts a large number of protein torsion angles (phi, psi, omega, chi1) using…

Predicts a large number of protein torsion angles (phi, psi, omega, chi1) using only 1H, 13C and 15N chemical shift assignments as input. SHIFTOR program is capable of predicting chi1 angles with 81%…

Improves the accuracy of torsion angle prediction. SPINE X is based on a…

Improves the accuracy of torsion angle prediction. SPINE X is based on a modified version of the consensus assignment SKSP. It can produce a distribution of three secondary structure states that is…

An integrated system of neural networks for real-value prediction and apply the…

An integrated system of neural networks for real-value prediction and apply the method to predict residue-solvent accessibility and backbone psi dihedral angles of proteins based on information…

A machine-learning based algorithm for ab initio prediction of protein backbone…

A machine-learning based algorithm for ab initio prediction of protein backbone torsion angles. For a given amino acid sequence, the real-value backbone torsion angles (phi and psi) for each residue…

Predicts the protein backbone torsion angles from amino acid sequences. TANGLE…

Predicts the protein backbone torsion angles from amino acid sequences. TANGLE uses a two-level support vector regression approach to perform real-value torsion angle prediction using a variety of…

Predicts the gamma turn residues in the given protein sequence. The method is…

Predicts the gamma turn residues in the given protein sequence. The method is based on the neural network training on PSI-BLAST generated position specific matrices and PSIPRED predicted secondary…

An accurate predictor of backbone dihedral angles and secondary structure.…

An accurate predictor of backbone dihedral angles and secondary structure. Using predicted secondary structure and dihedral angles, our method improves the predictive accuracy of both secondary…

Reads PDB files to determine backbone torsion angles. torsions is able to…

Reads PDB files to determine backbone torsion angles. torsions is able to discover phi, psi and omega and enables calculation of C-alpha pseudo-torsions.

Calculates D2Check values. D2Check is a web application for observing…

Calculates D2Check values. D2Check is a web application for observing correlation of the dihedral angles in both at protein and residue level. Users can determine &Phi - &Psi and &Psi -…

Calculates phi and psi torsion angles from protein coordinates. psiphi reads a…

Calculates phi and psi torsion angles from protein coordinates. psiphi reads a clean coordinate file of protein structure coordinates and writes a standard EMBOSS report file of psi and phi torsion…

A multi-step support vector machine (SVM) procedure to predict the dihedral…

A multi-step support vector machine (SVM) procedure to predict the dihedral angle state of residues from sequence. Trained on 20,000 residues our approach leads to dihedral region predictions, that…

Two automated methods in protein backbone conformational state prediction: one…

Two automated methods in protein backbone conformational state prediction: one method is based on support vector machines (SVMs); the other method combines a standard feed-forward back-propagation…