Warning You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.
Citing ConSurf and ConSurf Credits

In citing the ConSurf server please refer to

    1. Ashkenazy H., Abadi S., Martz E., Chay O., Mayrose I., Pupko T., and Ben-Tal N. 2016
      ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules
      Nucl. Acids Res. 2016; DOI: 10.1093/nar/gkw408; PMID: 27166375 [ABS], [PDF]

    2. Celniker G., Nimrod G., Ashkenazy H., Glaser F., Martz E., Mayrose I., Pupko T., and Ben-Tal N. 2013.
      ConSurf: Using Evolutionary Data to Raise Testable Hypotheses about Protein Function
      Isr. J. Chem. 2013 March 10, doi: 10.1002/ijch.201200096 [ABS], [PDF]

    3. Ashkenazy H., Erez E., Martz E., Pupko T. and Ben-Tal N. 2010
      ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids.
      Nucl. Acids Res. 2010; DOI: 10.1093/nar/gkq399; PMID: 20478830 [ABS], [PDF]

    When using the server with protein structures (ConSurf method) please also refer to:

    • Landau M., Mayrose I., Rosenberg Y., Glaser F., Martz E., Pupko T. and Ben-Tal N. 2005.
      ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures.
      Nucl. Acids Res. 33:W299-W302. [ABS], [PDF]

    • Glaser F., Pupko T., Paz I., Bell R.E., Bechor D., Martz E. and Ben-Tal N. 2003.
      ConSurf: Identification of Functional Regions in Proteins by Surface-Mapping of Phylogenetic Information.
      Bioinformatics 19:163-164. [ABS], [PDF]

    When using the server with sequence only (ConSeq method) please also refer to:

    • Berezin C., Glaser F., Rosenberg J., Paz I., Pupko T., Fariselli P., Casadio R. and Ben-Tal N.
      ConSeq: The Identification of Functionally and Structurally Important Residues in Protein Sequences.
      Bioinformatics. Vol. 20 1322-1324, 2004. [PDF]

Main References
  • Mayrose I., Graur D., Ben-Tal N. and Pupko T. 2004.
    Comparison of site-specific rate-inference methods for protein sequences: empirical Bayesian methods are superior.
    Mol. Biol. Evol. 21:1781-1791. PDF

  • Pupko T., Bell R.E., Mayrose I., Glaser F. and Ben-Tal N. 2002.
    Rate4Site: an algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues.
    Bioinformatics 18 Suppl 1:S71-S77. PDF

  • Armon A., Graur D. and Ben-Tal N. 2001.
    ConSurf: An Algorithmic Tool for the Identification of Functional Regions in Proteins by Surface-Mapping of Phylogenetic Information.
    J. Mol. Biol. 307:447-463. PDF

  • Martz E. 2005.
    FirstGlance in Jmol (firstglance.jmol.org)

  • Martz E. 2002.
    Protein Explorer: easy yet powerful macromolecular visualization.
    Trends in Biochemical Sciences.27:107-109. (PDF available on request.)

  • Pettersen, E.F., Goddard, T.D., Huang, C.C., Couch, G.S., Greenblatt, D.M., Meng, E.C., and Ferrin, T.E.
    UCSF Chimera - A Visualization System for Exploratory Research and Analysis.
    J. Comput. Chem. 25(13):1605-1612 (2004).

  • Piero Fariselli and Rita Casadio.
    RCNPRED: prediction of the residue co-ordination numbers in proteins.
    Bioinformatics, 17, 202-204, 2001. (PDF)

  • AS Rose and PW Hildebrand.
    NGL Viewer: a web application for molecular visualization.
    Nucl Acids Res, (1 July 2015) 43 (W1): W576-W579 first published online April 29, 2015. doi:10.1093/nar/gkv402. (ABS), (PDF)

  • AS Rose, AR Bradley, Y Valasatava, JM Duarte, A Prlić and PW Rose.
    Web-based molecular graphics for large complexes.
    ACM Proceedings of the 21st International Conference on Web3D Technology (Web3D '16): 185-186, 2016. doi:10.1145/2945292.2945324 (ABS)

When using 3D model predicted by HHPred and MODELLER please also refer to:
  • Sali A., and Blundell T.L.
    Comparative protein modelling by satisfaction of spatial restraints.
    J. Mol. Biol. 234:779-815, 1993 (ABS)

  • Meier A., and Söding J.
    Automatic prediction of protein 3D structures by probabilistic multi-template homology modeling.
    PLoS Comput. Biol. 11:e1004343; 2015 (ABS)

When using RNA secondary structure prediction by RNAFold please also refer to:
  • Lorenz R., Bernhart S.H., Höner Zu Siederdissen C., Tafer H., Flamm C., Stadler P.F., and Hofacker I.L.
    ViennaRNA Package 2.0.
    Algorithms Mol. Biol. 6:26. 2011. (ABS)


Top Page