Proteins: Structure, Function, and Bioinformatics

Cover image for Proteins: Structure, Function, and Bioinformatics

June 2007

Volume 67, Issue 4

Pages 785–1202

  1. Short Communications

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

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Application Notes
    5. Structure Notes
    1. Folding of tandem-linked domains (pages 795–810)

      E. Prabhu Raman, Valeri Barsegov and Dmitri K. Klimov

      Version of Record online: 22 MAR 2007 | DOI: 10.1002/prot.21339

    2. Predicting protein domain interactions from coevolution of conserved regions (pages 811–820)

      Maricel G. Kann, Raja Jothi, Praveen F. Cherukuri and Teresa M. Przytycka

      Version of Record online: 13 MAR 2007 | DOI: 10.1002/prot.21347

    3. Attempt to simplify the amino-acid sequence of photoactive yellow protein with a set of simple rules (pages 821–833)

      Kumiko Shirai, Yoichi Yamazaki, Hironari Kamikubo, Yasushi Imamoto and Mikio Kataoka

      Version of Record online: 20 MAR 2007 | DOI: 10.1002/prot.21331

    4. Computational sidechain placement and protein mutagenesis with implicit solvent models (pages 853–867)

      Anne Lopes, Alexey Alexandrov, Christine Bathelt, Georgios Archontis and Thomas Simonson

      Version of Record online: 8 MAR 2007 | DOI: 10.1002/prot.21379

    5. Fast and reliable analysis of molecular motion using proximity relations and dimensionality reduction (pages 897–907)

      Erion Plaku, Hernán Stamati, Cecilia Clementi and Lydia E. Kavraki

      Version of Record online: 22 MAR 2007 | DOI: 10.1002/prot.21337

    6. Exploring the conformational space of protein loops using a mean field technique with MOLS sampling (pages 908–921)

      V. Kanagasabai, J. Arunachalam, P. Arun Prasad and N. Gautham

      Version of Record online: 13 MAR 2007 | DOI: 10.1002/prot.21333

    7. Molecular simulations bring new insights into flavonoid/quercetinase interaction modes (pages 961–970)

      Sébastien Fiorucci, Jérôme Golebiowski, Daniel Cabrol-Bass and Serge Antonczak

      Version of Record online: 20 MAR 2007 | DOI: 10.1002/prot.21380

    8. A computational model of the inhibition of Mycobacterium tuberculosis ATPase by a new drug candidate R207910 (pages 971–980)

      Marc R. de Jonge, Luc H.M. Koymans, Jérôme E.G. Guillemont, Anil Koul and Koen Andries

      Version of Record online: 23 MAR 2007 | DOI: 10.1002/prot.21376

    9. Identification of novel fragment compounds targeted against the pY pocket of v-Src SH2 by computational and NMR screening and thermodynamic evaluation (pages 981–990)

      Jonathan D. Taylor, Philip J. Gilbert, Mark A. Williams, William R. Pitt and John E. Ladbury

      Version of Record online: 28 MAR 2007 | DOI: 10.1002/prot.21369

    10. A comparative infrared spectroscopic study of glycoside hydrolases from extremophilic archaea revealed different molecular mechanisms of adaptation to high temperatures (pages 991–1001)

      Alessio Ausili, Beatrice Cobucci-Ponzano, Barbara Di Lauro, Rossana D'Avino, Giuseppe Perugino, Enrico Bertoli, Andrea Scirè, Mosè Rossi, Fabio Tanfani and Marco Moracci

      Version of Record online: 13 MAR 2007 | DOI: 10.1002/prot.21368

    11. Molecular adaptation strategies to high temperature and thermal denaturation mechanism of the D-trehalose/D-maltose-binding protein from the hyperthermophilic archaeon Thermococcus litoralis (pages 1002–1009)

      Dimitrios Fessas, Maria Staiano, Alberto Barbiroli, Anna Marabotti, Alberto Schiraldi, Antonio Varriale, Mose' Rossi and Sabato D'Auria

      Version of Record online: 20 MAR 2007 | DOI: 10.1002/prot.21383

    12. Recognition of Cdk2 by Cdk7 (pages 1048–1059)

      Graziano Lolli and Louise N. Johnson

      Version of Record online: 20 MAR 2007 | DOI: 10.1002/prot.21370

    13. Comprehensive statistical analysis of residues interaction specificity at protein–protein interfaces (pages 1060–1077)

      Anastasya Anashkina, Eugene Kuznetsov, Natalia Esipova and Vladimir Tumanyan

      Version of Record online: 13 MAR 2007 | DOI: 10.1002/prot.21363

    14. Assay for rapid analysis of the tri-peptidase activity of LTA4 hydrolase (pages 1113–1118)

      Fredrik Tholander and Jesper Z. Haeggström

      Version of Record online: 13 MAR 2007 | DOI: 10.1002/prot.21329

    15. Site directed mutagenesis at position 193 of human trypsin 4 alters the rate of conformational change during activation: Role of local internal viscosity in protein dynamics (pages 1119–1127)

      Júlia Tóth, Zoltán Simon, Péter Medveczky, Linda Gombos, Balázs Jelinek, László Szilágyi, László Gráf and András Málnási-Csizmadia

      Version of Record online: 13 APR 2007 | DOI: 10.1002/prot.21398

    16. Human DEAD-box ATPase DDX3 shows a relaxed nucleoside substrate specificity (pages 1128–1137)

      Raffaella Franca, Amalia Belfiore, Silvio Spadari and Giovanni Maga

      Version of Record online: 13 MAR 2007 | DOI: 10.1002/prot.21433

    17. Solution structures, dynamics, and lipid-binding of the sterile α-motif domain of the deleted in liver cancer 2 (pages 1154–1166)

      Hongyan Li, King-Leung Fung, Dong-Yan Jin, Stephen SM Chung, Yick-Pang Ching, Irene Oi-lin Ng, Kong-Hung Sze, Ben C.B. Ko and Hongzhe Sun

      Version of Record online: 22 MAR 2007 | DOI: 10.1002/prot.21361

  3. Application Notes

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Application Notes
    5. Structure Notes
    1. Cation–aromatic database (pages 1179–1184)

      A. Srinivas Reddy, G. Madhavi Sastry and G. Narahari Sastry

      Version of Record online: 21 MAR 2007 | DOI: 10.1002/prot.21202

  4. Structure Notes

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Application Notes
    5. Structure Notes
    1. You have free access to this content
      NMR structure of hypothetical protein TA0938 from Thermoplasma acidophilum (pages 1185–1188)

      Daniel Monleón, Adelinda Yee, Cheryl Arrowsmith and Bernardo Celda

      Version of Record online: 21 MAR 2007 | DOI: 10.1002/prot.21143

    2. You have free access to this content
      Solution structure of hypothetical protein, HP0495 (Y495_HELPY) from Helicobacter pylori (pages 1189–1192)

      Min-Duk Seo, Sung Jean Park, Hyun-Jung Kim and Bong-Jin Lee

      Version of Record online: 20 MAR 2007 | DOI: 10.1002/prot.21346

    3. You have free access to this content
      Crystal structure of recombinant human stromal cell-derived factor-1α (pages 1193–1197)

      Eui Kyung Ryu, Tae Gyun Kim, Taek Hun Kwon, In Duk Jung, Dowook Ryu, Yeong-Min Park, Junhong Kim, Kyo Han Ahn and Changill Ban

      Version of Record online: 13 MAR 2007 | DOI: 10.1002/prot.21350

    4. Structure of the SANT domain from the Xenopus chromatin remodeling factor ISWI (pages 1198–1202)

      John R. Horton, Stuart J. Elgar, Seema I. Khan, Xing Zhang, Paul A. Wade and Xiaodong Cheng

      Version of Record online: 21 MAR 2007 | DOI: 10.1002/prot.21352

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