Literature DB >> 16809388

ET viewer: an application for predicting and visualizing functional sites in protein structures.

Daniel H Morgan1, David M Kristensen, David Mittelman, Olivier Lichtarge.   

Abstract

SUMMARY: The Evolutionary Trace Viewer (ETV) provides a one-stop environment in which to run, visualize and interpret Evolutionary Trace (ET) predictions of functional sites in protein structures. ETV is implemented using Java to run across different operating systems using Java Web Start technology. AVAILABILITY: The ETV is available for download from our website at http://mammoth.bcm.tmc.edu/traceview/index.html. This webpage also links to sample trace results and a user manual that describes ET Viewer functions in detail.

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Year:  2006        PMID： 16809388     DOI： 10.1093/bioinformatics/btl285

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


  43 in total

1.  Sequence and structure continuity of evolutionary importance improves protein functional site discovery and annotation.

Authors:  A D Wilkins; R Lua; S Erdin; R M Ward; O Lichtarge
Journal:  Protein Sci       Date:  2010-07       Impact factor: 6.725

2.  PyETV: a PyMOL evolutionary trace viewer to analyze functional site predictions in protein complexes.

Authors:  Rhonald C Lua; Olivier Lichtarge
Journal:  Bioinformatics       Date:  2010-10-06       Impact factor: 6.937

Review 3.  The functional importance of co-evolving residues in proteins.

Authors:  Inga Sandler; Nitzan Zigdon; Efrat Levy; Amir Aharoni
Journal:  Cell Mol Life Sci       Date:  2013-09-01       Impact factor: 9.261

4.  Analysis of the plasticity of location of the Arg244 positive charge within the active site of the TEM-1 beta-lactamase.

Authors:  David C Marciano; Nicholas G Brown; Timothy Palzkill
Journal:  Protein Sci       Date:  2009-10       Impact factor: 6.725

5.  PRICE (PRotein Interface Conservation and Energetics): a server for the analysis of protein-protein interfaces.

Authors:  Mainak Guharoy; Arumay Pal; Maitrayee Dasgupta; Pinak Chakrabarti
Journal:  J Struct Funct Genomics       Date:  2011-04-26

6.  Meet me halfway: when genomics meets structural bioinformatics.

Authors:  Sungsam Gong; Catherine L Worth; Tammy M K Cheng; Tom L Blundell
Journal:  J Cardiovasc Transl Res       Date:  2011-02-25       Impact factor: 4.132

7.  Evolutionary Trace Annotation Server: automated enzyme function prediction in protein structures using 3D templates.

Authors:  R Matthew Ward; Eric Venner; Bryce Daines; Stephen Murray; Serkan Erdin; David M Kristensen; Olivier Lichtarge
Journal:  Bioinformatics       Date:  2009-03-23       Impact factor: 6.937

8.  Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure.

Authors:  John A Capra; Roman A Laskowski; Janet M Thornton; Mona Singh; Thomas A Funkhouser
Journal:  PLoS Comput Biol       Date:  2009-12-04       Impact factor: 4.475

9.  The ConSurf-DB: pre-calculated evolutionary conservation profiles of protein structures.

Authors:  Ofir Goldenberg; Elana Erez; Guy Nimrod; Nir Ben-Tal
Journal:  Nucleic Acids Res       Date:  2008-10-29       Impact factor: 16.971

10.  Analysis of HSP90-related folds with MED-SuMo classification approach.

Authors:  Olivia Doppelt-Azeroual; Fabrice Moriaud; François Delfaud; Alexandre G de Brevern
Journal:  Drug Des Devel Ther       Date:  2009-09-21       Impact factor: 4.162
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