Proteins: Structure, Function, and Bioinformatics

Copyright © 2013 Wiley Periodicals Inc.

Cover image for Vol. 79 Issue 10

October 2011

Volume 79, Issue 10

Pages 2771–3005

  1. Short Communications

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. Structural analysis of CPF_2247, a novel α-amylase from Clostridium perfringens (pages 2771–2777)

      Elizabeth Ficko-Blean, Christopher P. Stuart and Alisdair B. Boraston

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23116

  2. Research Articles

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. Predicting large-scale conformational changes in proteins using energy-weighted normal modes (pages 2778–2793)

      David S. Palmer and Frank Jensen

      Article first published online: 22 AUG 2011 | DOI: 10.1002/prot.23105

    2. The VSGB 2.0 model: A next generation energy model for high resolution protein structure modeling (pages 2794–2812)

      Jianing Li, Robert Abel, Kai Zhu, Yixiang Cao, Suwen Zhao and Richard A. Friesner

      Article first published online: 22 AUG 2011 | DOI: 10.1002/prot.23106

    3. Ionic strength dependence of F-actin and glycolytic enzyme associations: A Brownian dynamics simulations approach (pages 2813–2827)

      Neville Y. Forlemu, Eric N. Njabon, Kristine L. Carlson, Elizabeth S. Schmidt, Victor F. Waingeh and Kathryn A. Thomasson

      Article first published online: 22 AUG 2011 | DOI: 10.1002/prot.23107

    4. PackHelix: A tool for helix-sheet packing during protein structure prediction (pages 2828–2843)

      Chengcheng Hu, Patrice Koehl and Nelson Max

      Article first published online: 23 AUG 2011 | DOI: 10.1002/prot.23108

    5. Computed structures of point deletion mutants and their enzymatic activities (pages 2844–2860)

      Monica Berrondo and Jeffrey J. Gray

      Article first published online: 23 AUG 2011 | DOI: 10.1002/prot.23109

    6. A survey of hemoglobin quaternary structures (pages 2861–2870)

      Sucharita Dey, Pinak Chakrabarti and Joël Janin

      Article first published online: 22 AUG 2011 | DOI: 10.1002/prot.23112

    7. Three ways in, one way out: Water dynamics in the trans-membrane domains of the inner membrane translocase AcrB (pages 2871–2885)

      Nadine Fischer and Christian Kandt

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23122

    8. The active–inactive transition of human thymidylate synthase: Targeted molecular dynamics simulations (pages 2886–2899)

      Outi M. H. Salo-Ahen and Rebecca C. Wade

      Article first published online: 22 AUG 2011 | DOI: 10.1002/prot.23123

    9. Prechemistry versus preorganization in DNA replication fidelity (pages 2900–2919)

      B. Ram Prasad and Arieh Warshel

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23128

    10. Progress in super long loop prediction (pages 2920–2935)

      Suwen Zhao, Kai Zhu, Jianing Li and Richard A. Friesner

      Article first published online: 23 AUG 2011 | DOI: 10.1002/prot.23129

    11. Elastic network model-based normal mode analysis reveals the conformational couplings in the tripartite AcrAB-TolC multidrug efflux complex (pages 2936–2945)

      Beibei Wang, Jingwei Weng, Kangnian Fan and Wenning Wang

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23143

    12. Mycobacterium tuberculosis Rv0899 defines a family of membrane proteins widespread in nitrogen-fixing bacteria (pages 2946–2955)

      Francesca M. Marassi

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23151

    13. Inhibition of α-synuclein aggregation by small heat shock proteins (pages 2956–2967)

      Ilona B. Bruinsma, Kim A. Bruggink, Karsten Kinast, Alexandra A. M. Versleijen, Ine M. J. Segers-Nolten, Vinod Subramaniam, H. Bea Kuiperij, Wilbert Boelens, Robert M. W. de Waal and Marcel M. Verbeek

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23152

    14. Molecular dynamics modeling of tubulin C-terminal tail interactions with the microtubule surface (pages 2968–2982)

      Holly Freedman, Tyler Luchko, Richard F. Luduena and Jack A. Tuszynski

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23155

  3. Structure Notes

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. Crystal structure of Mycobacterium tuberculosis Rv3168: A putative aminoglycoside antibiotics resistance enzyme (pages 2983–2987)

      Sangwoo Kim, Chi My Thi Nguyen, Eun-Jung Kim and Kyung-Jin Kim

      Article first published online: 22 AUG 2011 | DOI: 10.1002/prot.23119

    2. Solution NMR structure of VF0530 from Vibrio fischeri reveals a nucleic acid-binding function (pages 2988–2991)

      James M. Aramini, Paolo Rossi, Markus Fischer, Rong Xiao, Thomas B. Acton and Gaetano T. Montelione

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23121

    3. Ab initio phasing of a nucleoside hydrolase-related hypothetical protein from Saccharophagus degradans that is associated with carbohydrate metabolism (pages 2992–2998)

      Jan-Hendrik Hehemann, Candace Marsters and Alisdair B. Boraston

      Article first published online: 23 AUG 2011 | DOI: 10.1002/prot.23126

    4. Structural evidence that puromycin hydrolase is a new type of aminopeptidase with a prolyl oligopeptidase family fold (pages 2999–3005)

      Yasuyuki Matoba, Akira Nakayama, Kosuke Oda, Masafumi Noda, Takanori Kumagai, Motohiro Nishimura and Masanori Sugiyama

      Article first published online: 26 AUG 2011 | DOI: 10.1002/prot.23139

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