Literature DB >> 29032520

Mollib: a molecular and NMR data analysis software.

Justin L Lorieau1.   

Abstract

Mollib is a software framework for the analysis of molecular structures, properties and data with an emphasis on data collected by NMR. It uses an open source model and a plugin framework to promote community-driven development of new and enhanced features. Mollib includes tools for the automatic retrieval and caching of protein databank (PDB) structures, the hydrogenation of biomolecules, the analysis of backbone dihedral angles and hydrogen bonds, and the fitting of residual dipolar coupling (RDC) and residual anisotropic chemical shift (RACS) data. In this article, we release version 1.0 of mollib and demonstrate its application to common molecular and NMR data analyses.

Entities:  

Mesh:

Substances:

Year:  2017        PMID: 29032520     DOI: 10.1007/s10858-017-0142-5

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  32 in total

1.  The Xplor-NIH NMR molecular structure determination package.

Authors:  Charles D Schwieters; John J Kuszewski; Nico Tjandra; G Marius Clore
Journal:  J Magn Reson       Date:  2003-01       Impact factor: 2.229

2.  VADAR: a web server for quantitative evaluation of protein structure quality.

Authors:  Leigh Willard; Anuj Ranjan; Haiyan Zhang; Hassan Monzavi; Robert F Boyko; Brian D Sykes; David S Wishart
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

3.  MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes.

Authors:  Ian W Davis; Laura Weston Murray; Jane S Richardson; David C Richardson
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

4.  Recommendations for the presentation of NMR structures of proteins and nucleic acids. IUPAC-IUBMB-IUPAB Inter-Union Task Group on the Standardization of Data Bases of Protein and Nucleic Acid Structures Determined by NMR Spectroscopy.

Authors:  J L Markley; A Bax; Y Arata; C W Hilbers; R Kaptein; B D Sykes; P E Wright; K Wüthrich
Journal:  J Biomol NMR       Date:  1998-07       Impact factor: 2.835

5.  pH-triggered, activated-state conformations of the influenza hemagglutinin fusion peptide revealed by NMR.

Authors:  Justin L Lorieau; John M Louis; Charles D Schwieters; Adriaan Bax
Journal:  Proc Natl Acad Sci U S A       Date:  2012-11-19       Impact factor: 11.205

6.  NMRPipe: a multidimensional spectral processing system based on UNIX pipes.

Authors:  F Delaglio; S Grzesiek; G W Vuister; G Zhu; J Pfeifer; A Bax
Journal:  J Biomol NMR       Date:  1995-11       Impact factor: 2.835

7.  Evolutionary origin of a secondary structure: π-helices as cryptic but widespread insertional variations of α-helices that enhance protein functionality.

Authors:  Richard B Cooley; Daniel J Arp; P Andrew Karplus
Journal:  J Mol Biol       Date:  2010-10-01       Impact factor: 5.469

8.  Improved cross validation of a static ubiquitin structure derived from high precision residual dipolar couplings measured in a drug-based liquid crystalline phase.

Authors:  Alexander S Maltsev; Alexander Grishaev; Julien Roche; Michael Zasloff; Ad Bax
Journal:  J Am Chem Soc       Date:  2014-03-03       Impact factor: 15.419

9.  MolProbity: all-atom structure validation for macromolecular crystallography.

Authors:  Vincent B Chen; W Bryan Arendall; Jeffrey J Headd; Daniel A Keedy; Robert M Immormino; Gary J Kapral; Laura W Murray; Jane S Richardson; David C Richardson
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-12-21

10.  Advances in the REDCAT software package.

Authors:  Chris Schmidt; Stephanie J Irausquin; Homayoun Valafar
Journal:  BMC Bioinformatics       Date:  2013-10-07       Impact factor: 3.169

View more
  1 in total

1.  Partial alignment, residual dipolar couplings and molecular symmetry in solution NMR.

Authors:  Justin L Lorieau
Journal:  J Biomol NMR       Date:  2019-08-12       Impact factor: 2.835

  1 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.