Proteins: Structure, Function, and Bioinformatics

Cover image for Proteins: Structure, Function, and Bioinformatics

July 2007

Volume 68, Issue 1

Pages 1–424

  1. Review Articles

    1. Top of page
    2. Review Articles
    3. Short Communications
    4. Research Articles
    5. Structure Notes
    1. Principles of nanostructure design with protein building blocks (pages 1–12)

      Chung-Jung Tsai, Jie Zheng, David Zanuy, Nurit Haspel, Haim Wolfson, Carlos Alemán and Ruth Nussinov

      Version of Record online: 3 APR 2007 | DOI: 10.1002/prot.21413

  2. Short Communications

    1. Top of page
    2. Review Articles
    3. Short Communications
    4. Research Articles
    5. Structure Notes
    1. Characterization of Salmonella typhimurium YegS, a putative lipid kinase homologous to eukaryotic sphingosine and diacylglycerol kinases (pages 13–25)

      Charlie E. Nichols, Heather K. Lamb, Mike Lockyer, Ian G. Charles, Susan Pyne, Alastair R. Hawkins and David K. Stammers

      Version of Record online: 28 MAR 2007 | DOI: 10.1002/prot.21386

    2. Proton pathways and H+/Cl stoichiometry in bacterial chloride transporters (pages 26–33)

      Zhifeng Kuang, Uma Mahankali and Thomas L. Beck

      Version of Record online: 4 APR 2007 | DOI: 10.1002/prot.21441

    3. A simple way to compute protein dynamics without a mechanical model (pages 34–38)

      Chien-Hua Shih, Shao-Wei Huang, Shih-Chung Yen, Yan-Long Lai, Sung-Huan Yu and Jenn-Kang Hwang

      Version of Record online: 13 APR 2007 | DOI: 10.1002/prot.21430

  3. Research Articles

    1. Top of page
    2. Review Articles
    3. Short Communications
    4. Research Articles
    5. Structure Notes
    1. Benchmarking of TASSER in the ab initio limit (pages 48–56)

      Jose M. Borreguero and Jeffrey Skolnick

      Version of Record online: 19 APR 2007 | DOI: 10.1002/prot.21392

    2. The bioactive conformation of glucose-dependent insulinotropic polypeptide by NMR and CD spectroscopy (pages 92–99)

      Iñigo Alaña, J. Paul G. Malthouse, Finbarr P. M. O'Harte and Chandralal M. Hewage

      Version of Record online: 28 MAR 2007 | DOI: 10.1002/prot.21372

    3. Dynamic α-helices: Conformations that do not conform (pages 109–122)

      Kuljeet Singh Sandhu and Debasis Dash

      Version of Record online: 3 APR 2007 | DOI: 10.1002/prot.21328

    4. Conservation of metal-coordinating residues (pages 123–130)

      Ioannis N. Kasampalidis, Ioannis Pitas and Kleoniki Lyroudia

      Version of Record online: 28 MAR 2007 | DOI: 10.1002/prot.21384

    5. Structural and functional characterization of binding sites in metallocarboxypeptidases based on Optimal Docking Area analysis (pages 131–144)

      Daniel Fernández, Josep Vendrell, Francesc X. Avilés and Juan Fernández-Recio

      Version of Record online: 3 APR 2007 | DOI: 10.1002/prot.21390

    6. Flexible relaxation of rigid-body docking solutions (pages 159–169)

      Marcin Król, Alexander L. Tournier and Paul A. Bates

      Version of Record online: 30 MAR 2007 | DOI: 10.1002/prot.21391

    7. Strategies to search and design stabilizers of protein–protein interactions: A feasibility study (pages 170–186)

      Peter Block, Nils Weskamp, Alexander Wolf and Gerhard Klebe

      Version of Record online: 28 MAR 2007 | DOI: 10.1002/prot.21296

    8. Accuracy of binding mode prediction with a cascadic stochastic tunneling method (pages 195–204)

      Bernhard Fischer, Serena Basili, Holger Merlitz and Wolfgang Wenzel

      Version of Record online: 11 APR 2007 | DOI: 10.1002/prot.21382

    9. Conformation transition kinetics of Bombyx mori silk protein (pages 223–231)

      Xin Chen, Zhengzhong Shao, David P. Knight and Fritz Vollrath

      Version of Record online: 13 APR 2007 | DOI: 10.1002/prot.21414

    10. Targeted molecular dynamics simulation studies of binding and conformational changes in E. coli MurD (pages 243–254)

      Andrej Perdih, Miha Kotnik, Milan Hodoscek and Tom Solmajer

      Version of Record online: 11 APR 2007 | DOI: 10.1002/prot.21374

    11. Structural prediction of the β-domain of metallothionein-3 by molecular dynamics simulation (pages 255–266)

      Feng-Yun Ni, Bin Cai, Zhi-Chun Ding, Fei Zheng, Ming-Jie Zhang, Hou-Ming Wu, Hong-Zhe Sun and Zhong-Xian Huang

      Version of Record online: 11 APR 2007 | DOI: 10.1002/prot.21404

    12. Molecular definitions of fatty acid hydroxylases in Arabidopsis thaliana (pages 279–293)

      Sangeewa G. Rupasinghe, Hui Duan and Mary A. Schuler

      Version of Record online: 11 APR 2007 | DOI: 10.1002/prot.21335

    13. Stepwise prediction of conformational discontinuous B-cell epitopes using the Mapitope algorithm (pages 294–304)

      Erez M. Bublil, Natalia Tarnovitski Freund, Itay Mayrose, Osnat Penn, Anna Roitburd-Berman, Nimrod D. Rubinstein, Tal Pupko and Jonathan M. Gershoni

      Version of Record online: 10 APR 2007 | DOI: 10.1002/prot.21387

    14. Computational proteomics analysis of HIV-1 protease interactome (pages 305–312)

      Aleksejs Kontijevskis, Jarl E. S. Wikberg and Jan Komorowski

      Version of Record online: 10 APR 2007 | DOI: 10.1002/prot.21415

    15. A “moving metal mechanism” for substrate cleavage by the DNA repair endonuclease APE-1 (pages 313–323)

      Numan Oezguen, Catherine H. Schein, Srinivasa R. Peddi, Trevor D. Power, Tadahide Izumi and Werner Braun

      Version of Record online: 11 APR 2007 | DOI: 10.1002/prot.21397

    16. Structural and kinetic analysis of proton shuttle residues in the active site of human carbonic anhydrase III (pages 337–343)

      Ileana Elder, Zoë Fisher, Philip J. Laipis, Chingkuang Tu, Robert McKenna and David N. Silverman

      Version of Record online: 11 APR 2007 | DOI: 10.1002/prot.21403

    17. Molecular modeling of prohibitin domains (pages 353–362)

      Anja Winter, Outi Kämäräinen and Andreas Hofmann

      Version of Record online: 10 APR 2007 | DOI: 10.1002/prot.21355

    18. Structural variation manipulates the differential oxidative susceptibility and conformational stability of apolipoprotein E isoforms (pages 363–374)

      Kuo-Liang Su, Ta-Hsiang Wen, Chi-Yuan Chou, Gu-Gang Chang, Guang-Yaw Liu and Hui-Chih Hung

      Version of Record online: 4 APR 2007 | DOI: 10.1002/prot.21443

    19. Superantigen natural affinity maturation revealed by the crystal structure of staphylococcal enterotoxin G and its binding to T-cell receptor Vβ8.2 (pages 389–402)

      Marisa M. Fernández, Suparna Bhattacharya, Mauricio C. De Marzi, Patrick H. Brown, Melissa Kerzic, Peter Schuck, Roy A. Mariuzza and Emilio L. Malchiodi

      Version of Record online: 10 APR 2007 | DOI: 10.1002/prot.21388

  4. Structure Notes

    1. Top of page
    2. Review Articles
    3. Short Communications
    4. Research Articles
    5. Structure Notes
    1. You have free access to this content
      Crystal structure of a binary complex between human GCN5 histone acetyltransferase domain and acetyl coenzyme A (pages 403–407)

      Anja Schuetz, Galina Bernstein, Aiping Dong, Tatiana Antoshenko, Hong Wu, Peter Loppnau, Alexey Bochkarev and Alexander N. Plotnikov

      Version of Record online: 4 APR 2007 | DOI: 10.1002/prot.21407

    2. You have free access to this content
      Crystal structure of human slingshot phosphatase 2 (pages 408–412)

      Suk-Kyeong Jung, Dae Gwin Jeong, Tae-Sung Yoon, Jae Hoon Kim, Seong Eon Ryu and Seung Jun Kim

      Version of Record online: 11 APR 2007 | DOI: 10.1002/prot.21399

    3. You have free access to this content
    4. You have free access to this content
      Crystal structure of TM1030 from Thermotoga maritima at 2.3 Å resolution reveals molecular details of its transcription repressor function (pages 418–424)

      Lakshmanane Premkumar, Christopher L. Rife, S. Sri Krishna, Daniel McMullan, Mitchell D. Miller, Polat Abdubek, Eileen Ambing, Tamara Astakhova, Herbert L. Axelrod, Jaume M. Canaves, Dennis Carlton, Hsiu-Ju Chiu, Thomas Clayton, Michael DiDonato, Lian Duan, Marc-André Elsliger, Julie Feuerhelm, Ross Floyd, Slawomir K. Grzechnik, Joanna Hale, Eric Hampton, Gye Won Han, Justin Haugen, Lukasz Jaroszewski, Kevin K. Jin, Heath E. Klock, Mark W. Knuth, Eric Koesema, John S. Kovarik, Andreas Kreusch, Inna Levin, Timothy M. McPhillips, Andrew T. Morse, Edward Nigoghossian, Linda Okach, Silvya Oommachen, Jessica Paulsen, Kevin Quijano, Ron Reyes, Fred Rezezadeh, Dmitry Rodionov, Robert Schwarzenbacher, Glen Spraggon, Henry van den Bedem, Aprilfawn White, Guenter Wolf, Qingping Xu, Keith O. Hodgson, John Wooley, Ashley M. Deacon, Adam Godzik, Scott A. Lesley and Ian A. Wilson

      Version of Record online: 19 APR 2007 | DOI: 10.1002/prot.21436

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