Proteins: Structure, Function, and Bioinformatics

Cover image for Vol. 79 Issue 3

March 2011

Volume 79, Issue 3

Pages 679–1025

  1. Short Communications

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
  2. Research Articles

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. Remeasuring HEWL pKa values by NMR spectroscopy: Methods, analysis, accuracy, and implications for theoretical pKa calculations (pages 685–702)

      Helen Webb, Barbara Mary Tynan-Connolly, Gregory M. Lee, Damien Farrell, Fergal O'Meara, Chresten R. Søndergaard, Kaare Teilum, Chandralal Hewage, Lawrence P. McIntosh and Jens Erik Nielsen

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22886

    2. Kinetics, in silico docking, molecular dynamics, and MM-GBSA binding studies on prototype indirubins, KT5720, and staurosporine as phosphorylase kinase ATP-binding site inhibitors: The role of water molecules examined (pages 703–719)

      Joseph M. Hayes, Vicky T. Skamnaki, Georgios Archontis, Christos Lamprakis, Josephine Sarrou, Nicolas Bischler, Alexios-Leandros Skaltsounis, Spyros E. Zographos and Nikos G. Oikonomakos

      Version of Record online: 3 DEC 2010 | DOI: 10.1002/prot.22890

    3. Predicting kinetic constants of protein–protein interactions based on structural properties (pages 720–734)

      Hongjun Bai, Kun Yang, Daqi Yu, Changsheng Zhang, Fangjin Chen and Luhua Lai

      Version of Record online: 6 DEC 2010 | DOI: 10.1002/prot.22904

    4. Simplified modeling approach suggests structural mechanisms for constitutive activation of the C5a receptor (pages 787–802)

      Gregory V. Nikiforovich, Garland R. Marshall and Thomas J. Baranski

      Version of Record online: 30 NOV 2010 | DOI: 10.1002/prot.22918

    5. Structures of parasitic CDPK domains point to a common mechanism of activation (pages 803–820)

      Amy K. Wernimont, Merhnaz Amani, Wei Qiu, Juan C. Pizarro, Jennifer D. Artz, Yu-Hui Lin, Jocelyn Lew, Ashley Hutchinson and Raymond Hui

      Version of Record online: 3 DEC 2010 | DOI: 10.1002/prot.22919

    6. Effects of somatic mutations on CDR loop flexibility during affinity maturation (pages 821–829)

      Sergio E. Wong, Ben D. Sellers and Matthew P. Jacobson

      Version of Record online: 6 DEC 2010 | DOI: 10.1002/prot.22920

    7. Predicting protein flexibility through the prediction of local structures (pages 839–852)

      Aurélie Bornot, Catherine Etchebest and Alexandre G. de Brevern

      Version of Record online: 6 DEC 2010 | DOI: 10.1002/prot.22922

    8. Protein domain assignment from the recurrence of locally similar structures (pages 853–866)

      Chin-Hsien Tai, Vichetra Sam, Jean-Francois Gibrat, Jean Garnier, Peter J. Munson and Byungkook Lee

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22923

    9. Prediction of protein binding regions (pages 888–897)

      Naresh Chennamsetty, Vladimir Voynov, Veysel Kayser, Bernhard Helk and Bernhardt L. Trout

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22926

    10. Salt bridges: Geometrically specific, designable interactions (pages 898–915)

      Jason E. Donald, Daniel W. Kulp and William F. DeGrado

      Version of Record online: 5 JAN 2011 | DOI: 10.1002/prot.22927

    11. In silico modeling of pH-optimum of protein–protein binding (pages 925–936)

      Rooplekha C. Mitra, Zhe Zhang and Emil Alexov

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22931

    12. The α-sheet: A missing-in-action secondary structure? (pages 937–946)

      Volodymyr Babin, Christopher Roland and Celeste Sagui

      Version of Record online: 3 JAN 2011 | DOI: 10.1002/prot.22935

    13. Analysis of the peroxiredoxin family: Using active-site structure and sequence information for global classification and residue analysis (pages 947–964)

      Kimberly J. Nelson, Stacy T. Knutson, Laura Soito, Chananat Klomsiri, Leslie B. Poole and Jacquelyn S. Fetrow

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22936

    14. Crystal structures of a family 8 polysaccharide lyase reveal open and highly occluded substrate-binding cleft conformations (pages 965–974)

      Zainab H. Elmabrouk, Florence Vincent, Meng Zhang, Nicola L. Smith, Johan P. Turkenburg, Simon J. Charnock, Gary W. Black and Edward J. Taylor

      Version of Record online: 18 DEC 2010 | DOI: 10.1002/prot.22938

    15. The mechanism of papain inhibition by peptidyl aldehydes (pages 975–985)

      Michael Shokhen, Netaly Khazanov and Amnon Albeck

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22939

    16. Molecular dynamics simulation of β2-microglobulin in denaturing and stabilizing conditions (pages 986–1001)

      Federico Fogolari, Alessandra Corazza, Nicola Varini, Matteo Rotter, Devrim Gumral, Luca Codutti, Enrico Rennella, Paolo Viglino, Vittorio Bellotti and Gennaro Esposito

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22940

    17. Fingerprint-based structure retrieval using electron density (pages 1002–1009)

      Shuangye Yin and Nikolay V. Dokholyan

      Version of Record online: 3 JAN 2011 | DOI: 10.1002/prot.22941

  3. Structure Notes

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. Crystal structure of toll-like receptor 2-activating lipoprotein IIpA from Vibrio vulnificus (pages 1020–1025)

      Sangheon Yu, Na Yeon Lee, Soon-Jung Park and Sangkee Rhee

      Version of Record online: 22 DEC 2010 | DOI: 10.1002/prot.22929

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