Proteins: Structure, Function, and Bioinformatics

Cover image for Vol. 81 Issue 12

Special Issue: Fifth Meeting on the Critical Assessment of Predicted Interactions

December 2013

Volume 81, Issue 12

Pages 2073–2236

Issue edited by: Alexandre M. J. J. Bonvin, Joël Janin, Shoshana J. Wodak

  1. Editorials

    1. Top of page
    2. Editorials
    3. Research Articles
    4. Articles
  2. Research Articles

    1. Top of page
    2. Editorials
    3. Research Articles
    4. Articles
  3. Articles

    1. Top of page
    2. Editorials
    3. Research Articles
    4. Articles
    1. Docking, scoring, and affinity prediction in CAPRI (pages 2082–2095)

      Marc F. Lensink and Shoshana J. Wodak

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24428

    2. Detection of peptide-binding sites on protein surfaces: The first step toward the modeling and targeting of peptide-mediated interactions (pages 2096–2105)

      Assaf Lavi, Chi Ho Ngan, Dana Movshovitz-Attias, Tanggis Bohnuud, Christine Yueh, Dmitri Beglov, Ora Schueler-Furman and Dima Kozakov

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24422

    3. Predicting protein–DNA interactions by full search computational docking (pages 2106–2118)

      Victoria A. Roberts, Michael E. Pique, Lynn F. Ten Eyck and Sheng Li

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24395

    4. You have full text access to this OnlineOpen article
      Defining the limits of homology modeling in information-driven protein docking (pages 2119–2128)

      J. P. G. L. M. Rodrigues, A. S. J. Melquiond, E. Karaca, M. Trellet, M. van Dijk, G. C. P. van Zundert, C. Schmitz, S. J. de Vries, A. Bordogna, L. Bonati, P. L. Kastritis and Alexandre M. J. J. Bonvin

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24382

    5. A Markov-chain model description of binding funnels to enhance the ranking of docked solutions (pages 2143–2149)

      Mieczyslaw Torchala, Iain H. Moal, Raphael A. G. Chaleil, Rudi Agius and Paul A. Bates

      Version of Record online: 10 SEP 2013 | DOI: 10.1002/prot.24369

    6. Protein docking using case-based reasoning (pages 2150–2158)

      Anisah W. Ghoorah, Marie-Dominique Devignes, Malika Smaïl-Tabbone and David W. Ritchie

      Version of Record online: 12 NOV 2013 | DOI: 10.1002/prot.24433

    7. How good is automated protein docking? (pages 2159–2166)

      Dima Kozakov, Dmitri Beglov, Tanggis Bohnuud, Scott E. Mottarella, Bing Xia, David R. Hall and Sandor Vajda

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24403

    8. Performance of ZDOCK in CAPRI rounds 20–26 (pages 2175–2182)

      Thom Vreven, Brian G. Pierce, Howook Hwang and Zhiping Weng

      Version of Record online: 12 NOV 2013 | DOI: 10.1002/prot.24432

    9. Expanding the frontiers of protein–protein modeling: From docking and scoring to binding affinity predictions and other challenges (pages 2192–2200)

      Chiara Pallara, Brian Jiménez-García, Laura Pérez-Cano, Miguel Romero-Durana, Albert Solernou, Solène Grosdidier, Carles Pons, Iain H. Moal and Juan Fernandez-Recio

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24387

    10. Extending RosettaDock with water, sugar, and pH for prediction of complex structures and affinities for CAPRI rounds 20–27 (pages 2201–2209)

      Krishna Praneeth Kilambi, Michael S. Pacella, Jianqing Xu, Jason W. Labonte, Justin R. Porter, Pravin Muthu, Kevin Drew, Daisuke Kuroda, Ora Schueler-Furman, Richard Bonneau and Jeffrey J. Gray

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24425

    11. Data-driven models for protein interaction and design (pages 2221–2228)

      Xiaolei Zhu, Spencer S. Ericksen, Omar N. A. Demerdash and Julie C. Mitchell

      Version of Record online: 17 OCT 2013 | DOI: 10.1002/prot.24405

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