Literature DB >> 17237072

Biskit--a software platform for structural bioinformatics.

Raik Grünberg1, Michael Nilges, Johan Leckner.   

Abstract

UNLABELLED: Biskit is a modular, object-oriented python library that provides intuitive classes for many typical tasks of structural bioinformatics research. It facilitates the manipulation and analysis of macromolecular structures, protein complexes and molecular dynamics trajectories. At the same time, Biskit offers a software platform for the rapid integration of external programs and new algorithms into complex structural bioinformatics workflows. Calculations are thus often delegated to established programs like Xplor, Amber, Hex, Prosa, Hmmer and Modeller; interfaces to further software can be easily added. Moreover, Biskit simplifies the parallelization of time consuming calculations via PVM (Parallel Virtual Machine). AVAILABILITY: The latest snapshot of Biskit, documentation and examples are freely available under the GNU General Public License at http://biskit.sf.net (alternate url http://biskit.pasteur.fr).

Entities:  

Mesh：

Substances：

Year:  2007        PMID： 17237072     DOI： 10.1093/bioinformatics/btl655

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  22 in total

1.  S279 point mutations in Candida albicans Sterol 14-α demethylase (CYP51) reduce in vitro inhibition by fluconazole.

Authors:  Andrew G S Warrilow; Jonathan G L Mullins; Claire M Hull; Josie E Parker; David C Lamb; Diane E Kelly; Steven L Kelly
Journal:  Antimicrob Agents Chemother       Date:  2012-01-17       Impact factor: 5.191

2.  Engineering of weak helper interactions for high-efficiency FRET probes.

Authors:  Raik Grünberg; Julia V Burnier; Tony Ferrar; Violeta Beltran-Sastre; François Stricher; Almer M van der Sloot; Raquel Garcia-Olivas; Arrate Mallabiabarrena; Xavier Sanjuan; Timo Zimmermann; Luis Serrano
Journal:  Nat Methods       Date:  2013-09-01       Impact factor: 28.547

3.  In Silico screening on the three-dimensional model of the Plasmodium vivax SUB1 protease leads to the validation of a novel anti-parasite compound.

Authors:  Anthony Bouillon; David Giganti; Christophe Benedet; Olivier Gorgette; Stéphane Pêtres; Elodie Crublet; Christine Girard-Blanc; Benoit Witkowski; Didier Ménard; Michael Nilges; Odile Mercereau-Puijalon; Véronique Stoven; Jean-Christophe Barale
Journal:  J Biol Chem       Date:  2013-05-07       Impact factor: 5.157

4.  A novel GABRG2 mutation, p.R136*, in a family with GEFS+ and extended phenotypes.

Authors:  Ann J Johnston; Jing-Qiong Kang; Robert L Macdonald; Mark I Rees; Wangzhen Shen; William O Pickrell; Thomas D Cushion; Jeffrey S Davies; Kristin Baer; Jonathan G L Mullins; Carrie L Hammond; Seo-Kyung Chung; Rhys H Thomas; Cathy White; Phil E M Smith
Journal:  Neurobiol Dis       Date:  2014-01-07       Impact factor: 5.996

5.  Allosteric activation of Bordetella pertussis adenylyl cyclase by calmodulin: molecular dynamics and mutagenesis studies.

Authors:  Edithe Selwa; Marilyne Davi; Alexandre Chenal; Ana-Cristina Sotomayor-Pérez; Daniel Ladant; Thérèse E Malliavin
Journal:  J Biol Chem       Date:  2014-07-25       Impact factor: 5.157

6.  The glycinergic system in human startle disease: a genetic screening approach.

Authors:  Jeff S Davies; Seo-Kyung Chung; Rhys H Thomas; Angela Robinson; Carrie L Hammond; Jonathan G L Mullins; Eloisa Carta; Brian R Pearce; Kirsten Harvey; Robert J Harvey; Mark I Rees
Journal:  Front Mol Neurosci       Date:  2010-03-23       Impact factor: 5.639

7.  OpenStructure: a flexible software framework for computational structural biology.

Authors:  Marco Biasini; Valerio Mariani; Jürgen Haas; Stefan Scheuber; Andreas D Schenk; Torsten Schwede; Ansgar Philippsen
Journal:  Bioinformatics       Date:  2010-08-23       Impact factor: 6.937

8.  New hyperekplexia mutations provide insight into glycine receptor assembly, trafficking, and activation mechanisms.

Authors:  Anna Bode; Sian-Elin Wood; Jonathan G L Mullins; Angelo Keramidas; Thomas D Cushion; Rhys H Thomas; William O Pickrell; Cheney J G Drew; Amira Masri; Elizabeth A Jones; Grace Vassallo; Alfred P Born; Fusun Alehan; Sharon Aharoni; Gerald Bannasch; Marius Bartsch; Bulent Kara; Amanda Krause; Elie G Karam; Stephanie Matta; Vivek Jain; Hanna Mandel; Michael Freilinger; Gail E Graham; Emma Hobson; Sue Chatfield; Catherine Vincent-Delorme; Jubran E Rahme; Zaid Afawi; Samuel F Berkovic; Owain W Howell; Jean-François Vanbellinghen; Mark I Rees; Seo-Kyung Chung; Joseph W Lynch
Journal:  J Biol Chem       Date:  2013-10-09       Impact factor: 5.157

9.  p3d--Python module for structural bioinformatics.

Authors:  Christian Fufezan; Michael Specht
Journal:  BMC Bioinformatics       Date:  2009-08-21       Impact factor: 3.169

10.  PTools: an opensource molecular docking library.

Authors:  Adrien Saladin; Sébastien Fiorucci; Pierre Poulain; Chantal Prévost; Martin Zacharias
Journal:  BMC Struct Biol       Date:  2009-05-01
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.