Literature DB >> 15647294

Selecton: a server for detecting evolutionary forces at a single amino-acid site.

Adi Doron-Faigenboim1, Adi Stern, Itay Mayrose, Eran Bacharach, Tal Pupko.   

Abstract

UNLABELLED: We present an algorithmic tool for the identification of biologically significant amino acids in proteins of known three dimensional structure. We estimate the degree of purifying selection and positive Darwinian selection at each site and project these estimates onto the molecular surface of the protein. Thus, patches of functional residues (undergoing either positive or purifying selection), which may be discontinuous in the linear sequence, are revealed. We test for the statistical significance of the site-specific scores in order to obtain reliable and valid estimates. AVAILABILITY: The Selecton web server is available at: http://selecton.bioinfo.tau.ac.il SUPPLEMENTARY INFORMATION: More information is available at http://selecton.bioinfo.tau.ac.il/overview.html. A set of examples is available at http://selecton.bioinfo.tau.ac.il/gallery.html.

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Substances:

Year:  2005        PMID: 15647294     DOI: 10.1093/bioinformatics/bti259

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


  68 in total

1.  Molecular characterization of two endothelin pathways in East African cichlid fishes.

Authors:  Eveline T Diepeveen; Walter Salzburger
Journal:  J Mol Evol       Date:  2012-01-21       Impact factor: 2.395

2.  Functional evolution of the OAS1 viral sensor: Insights from old world primates.

Authors:  Ian Fish; Stéphane Boissinot
Journal:  Infect Genet Evol       Date:  2016-07-05       Impact factor: 3.342

3.  ACP5 (Uteroferrin): phylogeny of an ancient and conserved gene expressed in the endometrium of mammals.

Authors:  Maria B Padua; Vincent J Lynch; Natalia V Alvarez; Mark A Garthwaite; Thaddeus G Golos; Fuller W Bazer; Satyan Kalkunte; Surendra Sharma; Gunter P Wagner; Peter J Hansen
Journal:  Biol Reprod       Date:  2012-04-27       Impact factor: 4.285

4.  Coevolution between nonhomologous but functionally similar proteins and their conserved partners in the Legionella pathogenesis system.

Authors:  Michal Feldman; Tal Zusman; Shelly Hagag; Gil Segal
Journal:  Proc Natl Acad Sci U S A       Date:  2005-08-09       Impact factor: 11.205

5.  Evolution of the metazoan protein phosphatase 2C superfamily.

Authors:  Adi Stern; Eyal Privman; Michal Rasis; Sara Lavi; Tal Pupko
Journal:  J Mol Evol       Date:  2006-12-06       Impact factor: 2.395

6.  Analysis of phylogenetic and functional diverge in plant nine-cis epoxycarotenoid dioxygenase gene family.

Authors:  R Priya; Ramamoorthy Siva
Journal:  J Plant Res       Date:  2015-05-01       Impact factor: 2.629

7.  Structural and molecular diversification of the Anguimorpha lizard mandibular venom gland system in the arboreal species Abronia graminea.

Authors:  Ivan Koludarov; Kartik Sunagar; Eivind A B Undheim; Timothy N W Jackson; Tim Ruder; Darryl Whitehead; Alejandro C Saucedo; G Roberto Mora; Alejandro C Alagon; Glenn King; Agostinho Antunes; Bryan G Fry
Journal:  J Mol Evol       Date:  2012-11-17       Impact factor: 2.395

8.  Squeezers and leaf-cutters: differential diversification and degeneration of the venom system in toxicoferan reptiles.

Authors:  Bryan G Fry; Eivind A B Undheim; Syed A Ali; Timothy N W Jackson; Jordan Debono; Holger Scheib; Tim Ruder; David Morgenstern; Luke Cadwallader; Darryl Whitehead; Rob Nabuurs; Louise van der Weerd; Nicolas Vidal; Kim Roelants; Iwan Hendrikx; Sandy Pineda Gonzalez; Ivan Koludarov; Alun Jones; Glenn F King; Agostinho Antunes; Kartik Sunagar
Journal:  Mol Cell Proteomics       Date:  2013-04-01       Impact factor: 5.911

9.  Evolutionary analysis of mammalian enamelin, the largest enamel protein, supports a crucial role for the 32-kDa peptide and reveals selective adaptation in rodents and primates.

Authors:  Nawfal Al-Hashimi; Jean-Yves Sire; Sidney Delgado
Journal:  J Mol Evol       Date:  2009-12       Impact factor: 2.395

10.  Transcriptome comparison reveals the patterns of selection in domesticated and wild ramie (Boehmeria nivea L. Gaud).

Authors:  Touming Liu; Shouwei Tang; Siyuan Zhu; Qingming Tang; Xia Zheng
Journal:  Plant Mol Biol       Date:  2014-06-17       Impact factor: 4.076

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