BioShell--a Package of Tools for Structural Biology Computations

Overview

Journal Bioinformatics

Publisher Oxford University Press

Specialty Biology

Date 2006 Jan 13

PMID 16407320

Citations 26

Authors

Dominik Gront

Andrzej Kolinski

Affiliations

Soon will be listed here.

Abstract

Summary: BioShell is a suite of programs performing common tasks accompanying protein structure modeling. BioShell design is based on UNIX shell flexibility and should be used as its extension. Using BioShell various molecular modeling procedures can be integrated in a single pipeline.

Availability: BioShell package can be downloaded from its website http://biocomp.chem.uw.edu.pl/BioShell and these pages provide many examples and a detailed documentation for the newest version.

Citing Articles

Automated Protein Secondary Structure Assignment from C Positions Using Neural Networks.

Saqib M, Krys J, Gront D Biomolecules. 2022; 12(6).

PMID: 35740966 PMC: 9220970. DOI: 10.3390/biom12060841.

Prediction of Protein Tertiary Structure via Regularized Template Classification Techniques.

Alvarez-Machancoses O, Fernandez-Martinez J, Kloczkowski A Molecules. 2020; 25(11).

PMID: 32466409 PMC: 7321371. DOI: 10.3390/molecules25112467.

BioShell 3.0: Library for Processing Structural Biology Data.

Macnar J, Szulc N, Krys J, Badaczewska-Dawid A, Gront D Biomolecules. 2020; 10(3).

PMID: 32188163 PMC: 7175226. DOI: 10.3390/biom10030461.

Comparison of α-Helix and β-Sheet Structure Adaptation to a Quantum Dot Geometry: Toward the Identification of an Optimal Motif for a Protein Nanoparticle Cover.

Kopec K, Pedziwiatr M, Gront D, Sztatelman O, Slawski J, Lazicka M ACS Omega. 2019; 4(8):13086-13099.

PMID: 31460436 PMC: 6705085. DOI: 10.1021/acsomega.9b00505.

Predicting protein tertiary structure and its uncertainty analysis via particle swarm sampling.

Alvarez O, Fernandez-Martinez J, Corbeanu A, Fernandez-Muniz Z, Kloczkowski A J Mol Model. 2019; 25(3):79.

PMID: 30810816 PMC: 7586042. DOI: 10.1007/s00894-019-3956-0.