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BALL specifications

Information


Unique identifier OMICS_04968
Name BALL
Alternative name Biochemical Algorithms Library
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, Python
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes

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  • person_outline Andreas Hildebrandt <>

Publication for Biochemical Algorithms Library

BALL in publications

 (4)
PMCID: 4826543
PMID: 27059896
DOI: 10.1186/s12859-016-1008-7

[…] using a precomputed kernel., we use rigid docking to estimate the binding affinity between ivig and a candidate peptide. we computed a hypothesized 3-dimensional structure for each peptide using the biochemical algorithms library (ball) []. we built a starting model for each peptide p by positioning the side chains for each amino acid by choosing the most frequently occurring rotamer position […]

PMCID: 3834811
PMID: 23975197
DOI: 10.1093/nar/gkt732

[…] by duan et al. (,,). we mapped the atwrky1 cdbd protein onto the mmgcm1a protein using root mean square deviation (rmsd)-minimizing superposition (as implemented by the atom bijection method in biochemical algorithms library (ball)) (). we defined certain cα atoms of both proteins and stored them in a paired list. the resulting rmsd value for the optimal aligned β-sheet atoms (26 cα atoms) […]

PMCID: 3083569
DOI: 10.1186/1758-2946-3-S1-P15

[…] environments are necessary as well as – usually not lossless – conversions between different formats and results obtained this way are hard to reproduce., here we present a framework, based on the biochemical algorithms library (ball) [], that provides a broad range of functionality, covering all common areas of interest for virtual screening and molecular docking. it includes tools […]

PMCID: 1253831
PMID: 16221976
DOI: 10.1093/nar/gki885

[…] of extracted a domains were either obtained directly from the literature or by following references (pubmed links, gene name, organism, authors, etc.) given in database entries of proteins., the ‘biochemical algorithms library’ [ball, ()] and a simple python script were used to extract residues that have at least one atom at a given distance from the bound phenylalanine in the grsa-phe […]

BALL institution(s)
Center for Bioinformatics Saar, Saarland University, Saarbrücken, Germany; Center for Bioinformatics Tübingen, Eberhard-Karls-Universität Tübingen, Germany; Intel Visual Computing Institute of Saarland University, Germany

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