Proteins: Structure, Function, and Bioinformatics

Cover image for Proteins: Structure, Function, and Bioinformatics

1 December 2005

Volume 61, Issue 4

Pages 699–1149

  1. Prediction Report

    1. Top of page
    2. Prediction Report
    3. Research Articles
    4. Structure Notes
  2. Research Articles

    1. Top of page
    2. Prediction Report
    3. Research Articles
    4. Structure Notes
    1. Very fast empirical prediction and rationalization of protein pKa values (pages 704–721)

      Hui Li, Andrew D. Robertson and Jan H. Jensen

      Version of Record online: 17 OCT 2005 | DOI: 10.1002/prot.20660

    2. Structural characterization of proteins using residue environments (pages 741–747)

      Sean D. Mooney, Mike Hsin-Ping Liang, Rob DeConde and Russ B. Altman

      Version of Record online: 21 OCT 2005 | DOI: 10.1002/prot.20661

    3. A tetrapeptide-based method for polyproline II-type secondary structure prediction (pages 763–768)

      Peter K. Vlasov, Anna V. Vlasova, Vladimir G. Tumanyan and Natalia G. Esipova

      Version of Record online: 17 OCT 2005 | DOI: 10.1002/prot.20670

    4. Folding behavior of chaperonin-mediated substrate protein (pages 777–794)

      Wei-Xin Xu, Jun Wang and Wei Wang

      Version of Record online: 17 OCT 2005 | DOI: 10.1002/prot.20689

    5. Free energy landscape and folding mechanism of a β-hairpin in explicit water: A replica exchange molecular dynamics study (pages 795–808)

      Phuong H. Nguyen, Gerhard Stock, Emil Mittag, Chin-Kun Hu and Mai Suan Li

      Version of Record online: 20 OCT 2005 | DOI: 10.1002/prot.20696

    6. Comparative molecular dynamics—Similar folds and similar motions? (pages 809–822)

      Andrew Pang, Yalini Arinaminpathy, Mark S. P. Sansom and Philip C. Biggin

      Version of Record online: 17 OCT 2005 | DOI: 10.1002/prot.20672

    7. Unwinding the helical linker of calcium-loaded calmodulin: A molecular dynamics study (pages 829–839)

      G. Fiorin, R. R. Biekofsky, A. Pastore and P. Carloni

      Version of Record online: 28 SEP 2005 | DOI: 10.1002/prot.20597

    8. Molecular docking of balanol to dynamics snapshots of protein kinase A (pages 850–858)

      Chung F. Wong, Jeremy Kua, Yingkai Zhang, T.P. Straatsma and J. Andrew McCammon

      Version of Record online: 21 OCT 2005 | DOI: 10.1002/prot.20688

    9. Use of bioinformatics tools for the annotation of disease-associated mutations in animal models (pages 878–887)

      Carles Ferrer-Costa, Modesto Orozco and Xavier de la Cruz

      Version of Record online: 5 OCT 2005 | DOI: 10.1002/prot.20664

    10. Rational genomics I: Antisense open reading frames and codon bias in short-chain oxido reductase enzymes and the evolution of the genetic code (pages 900–906)

      William L. Duax, Robert Huether, Vladimir Z. Pletnev, David Langs, Anthony Addlagatta, Sonjay Connare, Lukas Habegger and Jay Gill

      Version of Record online: 21 OCT 2005 | DOI: 10.1002/prot.20687

    11. Knowledge-based voting algorithm for automated protein functional annotation (pages 907–917)

      G.X. Yu, E.M. Glass, N.T. Karonis and N. Maltsev

      Version of Record online: 26 OCT 2005 | DOI: 10.1002/prot.20652

    12. External cross-validation for unbiased evaluation of protein family detectors: Application to allergens (pages 918–925)

      Daniel Soeria-Atmadja, Mikael Wallman, Åsa K. Björklund, Anders Isaksson, Ulf Hammerling and Mats G. Gustafsson

      Version of Record online: 17 OCT 2005 | DOI: 10.1002/prot.20656

    13. Kinetic and crystallographic studies of glucopyranose spirohydantoin and glucopyranosylamine analogs inhibitors of glycogen phosphorylase (pages 966–983)

      Kimberly A. Watson, Evangelia D. Chrysina, Katerina E. Tsitsanou, Spyros E. Zographos, Georgios Archontis, George W.J. Fleet and Nikos G. Oikonomakos

      Version of Record online: 12 OCT 2005 | DOI: 10.1002/prot.20653

    14. Glycogen phosphorylase inhibitors: A free energy perturbation analysis of glucopyranose spirohydantoin analogues (pages 984–998)

      G. Archontis, K. A. Watson, Q. Xie, G. Andreou, E. D. Chrysina, S. E. Zographos, N. G. Oikonomakos and M. Karplus

      Version of Record online: 21 OCT 2005 | DOI: 10.1002/prot.20641

    15. Structural basis of the substrate subsite and the highly thermal stability of xylanase 10B from Thermotoga maritima MSB8 (pages 999–1009)

      Ihsanawati, Takashi Kumasaka, Tomonori Kaneko, Chihiro Morokuma, Rie Yatsunami, Takao Sato, Satoshi Nakamura and Nobuo Tanaka

      Version of Record online: 24 OCT 2005 | DOI: 10.1002/prot.20700

    16. The impact of the fourth disulfide bridge in scorpion toxins of the α-KTx6 subfamily (pages 1010–1023)

      Louis Carrega, Amor Mosbah, Gilles Ferrat, Christine Beeton, Nicolas Andreotti, Pascal Mansuelle, Hervé Darbon, Michel De Waard and Jean-Marc Sabatier

      Version of Record online: 24 OCT 2005 | DOI: 10.1002/prot.20681

    17. Crystal structure of a new class of glutathione transferase from the model human hookworm nematode Heligmosomoides polygyrus (pages 1024–1031)

      David J. Schuller, Qun Liu, Irina A. Kriksunov, Alison M. Campbell, John Barrett, Peter M. Brophy and Quan Hao

      Version of Record online: 27 SEP 2005 | DOI: 10.1002/prot.20649

    18. Structural basis for SUMO-E2 interaction revealed by a complex model using docking approach in combination with NMR data (pages 1050–1058)

      Husheng Ding, Yuedong Yang, Jiahai Zhang, Jihui Wu, Haiyan Liu and Yunyu Shi

      Version of Record online: 13 OCT 2005 | DOI: 10.1002/prot.20695

    19. Refinement of unbound protein docking studies using biological knowledge (pages 1059–1067)

      Philipp Heuser, Davide Baù, Pascal Benkert and Dietmar Schomburg

      Version of Record online: 5 OCT 2005 | DOI: 10.1002/prot.20634

    20. An intuitive approach to measuring protein surface curvature (pages 1068–1074)

      Ryan G. Coleman, Michael A. Burr, Diane L. Souvaine and Alan C. Cheng

      Version of Record online: 18 OCT 2005 | DOI: 10.1002/prot.20680

    21. Multiple display of a protein domain on a bacterial polymeric scaffold (pages 1089–1100)

      P. O. Craig, P. M. Berguer, N. Ainciart, V. Zylberman, M. G. Thomas, L. J. Martinez Tosar, A. Bulloj, G. L. Boccaccio and F. A. Goldbaum

      Version of Record online: 28 SEP 2005 | DOI: 10.1002/prot.20635

    22. Deuterium oxide promotes assembly and bundling of FtsZ protofilaments (pages 1101–1110)

      Manas Kumar Santra, Debjani Dasgupta and Dulal Panda

      Version of Record online: 21 OCT 2005 | DOI: 10.1002/prot.20671

  3. Structure Notes

    1. Top of page
    2. Prediction Report
    3. Research Articles
    4. Structure Notes
    1. You have free access to this content
      Solution structure of HP1242 from Helicobacter pylori (pages 1111–1113)

      Su-Jin Kang, Sung Jean Park, Seo-Jeong Jung and Bong-Jin Lee

      Version of Record online: 17 OCT 2005 | DOI: 10.1002/prot.20654

    2. You have free access to this content
      Solution structure of conserved hypothetical protein HP0894 from Helicobacter pylori (pages 1114–1116)

      Kyung-Doo Han, Sung-Jean Park, Sun-Bok Jang, Woo-Sung Son and Bong-Jin Lee

      Version of Record online: 17 OCT 2005 | DOI: 10.1002/prot.20691

    3. You have free access to this content
      Crystal structure of the hypothetical protein TTHA1013 from Thermus thermophilus HB8 (pages 1117–1120)

      Motoyuki Hattori, Eiichi Mizohata, Miho Manzoku, Yoshitaka Bessho, Kazutaka Murayama, Takaho Terada, Seiki Kuramitsu, Mikako Shirouzu and Shigeyuki Yokoyama

      Version of Record online: 25 OCT 2005 | DOI: 10.1002/prot.20692

    4. You have free access to this content
    5. You have free access to this content
      Crystal structure of the hypothetical protein ST2072 from Sulfolobus tokodaii (pages 1127–1131)

      Yoshikazu Tanaka, Kouhei Tsumoto, Eiki Tanabe, Yoshiaki Yasutake, Naoki Sakai, Min Yao, Isao Tanaka and Izumi Kumagai

      Version of Record online: 13 OCT 2005 | DOI: 10.1002/prot.20619

    6. You have free access to this content
      Crystal structure of a conserved hypothetical protein (gi: 13879369) from Mouse at 1.90 Å resolution reveals a new fold (pages 1132–1136)

      Heath E. Klock, Robert Schwarzenbacher, Qingping Xu, Daniel McMullan, Polat Abdubek, Eileen Ambing, Herbert Axelrod, Tanya Biorac, Jaume M. Canaves, Hsiu-Ju Chiu, Ashley M. Deacon, Michael DiDonato, Marc-André Elsliger, Adam Godzik, Carina Grittini, Slawomir K. Grzechnik, Joanna Hale, Eric Hampton, Gye Won Han, Justin Haugen, Michael Hornsby, Lukasz Jaroszewski, Eric Koesema, Andreas Kreusch, Peter Kuhn, Mitchell D. Miller, Kin Moy, Edward Nigoghossian, Jessica Paulsen, Kevin Quijano, Ron Reyes, Chris Rife, Eric Sims, Glen Spraggon, Raymond C. Stevens, Henry van den Bedem, Jeff Velasquez, Juli Vincent, Aprilfawn White, Guenter Wolf, Keith O. Hodgson, John Wooley, Scott A. Lesley and Ian A. Wilson

      Version of Record online: 13 OCT 2005 | DOI: 10.1002/prot.20610

    7. You have free access to this content
      Crystal structure of putative N-Acetyl-γ-glutamyl-phosphate reductase (AK071544) from rice (Oryza sativa) (pages 1137–1140)

      Tsuyoshi Nonaka, Akiko Kita, Jun Miura-Ohnuma, Etsuko Katoh, Noritoshi Inagaki, Toshimasa Yamazaki and Kunio Miki

      Version of Record online: 20 OCT 2005 | DOI: 10.1002/prot.20679

    8. You have free access to this content
    9. You have free access to this content
      Crystal structure of the C107S/C112S mutant of yeast nuclear 2-Cys peroxiredoxin (pages 1146–1149)

      Jongkeun Choi, Soonwoong Choi, Jae Kyung Chon, Jungwon Choi, Mee-Kyung Cha, Il-Han Kim and Whanchul Shin

      Version of Record online: 21 OCT 2005 | DOI: 10.1002/prot.20704

SEARCH

SEARCH BY CITATION