Proteins: Structure, Function, and Bioinformatics

Cover image for Vol. 80 Issue 2

February 2012

Volume 80, Issue 2

Pages 335–675

  1. Short Communications

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. How noise in force fields can affect the structural refinement of protein models? (pages 335–341)

      Pawel Gniewek, Andrzej Kolinski, Robert L Jernigan and Andrzej Kloczkowski

      Version of Record online: 16 DEC 2011 | DOI: 10.1002/prot.23240

  2. Research Articles

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. Calculation of rate spectra from noisy time series data (pages 342–351)

      Vincent A. Voelz and Vijay S. Pande

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23171

    2. Template-based protein structure modeling using TASSERVMT (pages 352–361)

      Hongyi Zhou and Jeffrey Skolnick

      Version of Record online: 22 NOV 2011 | DOI: 10.1002/prot.23183

    3. The role of atomic level steric effects and attractive forces in protein folding (pages 362–373)

      Heiko Lammert, Peter G. Wolynes and José N. Onuchic

      Version of Record online: 12 NOV 2011 | DOI: 10.1002/prot.23187

    4. Prediction of protein secondary structure from circular dichroism using theoretically derived spectra (pages 374–381)

      Caroline Louis-Jeune, Miguel A. Andrade-Navarro and Carol Perez-Iratxeta

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23188

      Corrected by:

      Erratum: Prediction of protein secondary structure from circular dichroism using theoretically derived spectra

      Vol. 80, Issue 12, 2818, Version of Record online: 27 SEP 2012

    5. Molecular dynamics simulation of conformational heterogeneity in transportin 1 (pages 382–397)

      Xia Wang, Xue Xu, Shanna Zhu, Zhengtao Xiao, Zhi Ma, Yan Li and Yonghua Wang

      Version of Record online: 22 NOV 2011 | DOI: 10.1002/prot.23193

    6. A structural and functional dissection of the cardiac stress response factor MS1 (pages 398–409)

      Claudia Fogl, Loretto Puckey, Ulrike Hinssen, Mariola Zaleska, Mohammed El-Mezgueldi, Rebecca Croasdale, Andrew Bowman, Akira Matsukawa, Nilesh J. Samani, Renos Savva and Mark Pfuhl

      Version of Record online: 12 NOV 2011 | DOI: 10.1002/prot.23201

    7. You have full text access to this OnlineOpen article
      STITCHER: Dynamic assembly of likely amyloid and prion β-structures from secondary structure predictions (pages 410–420)

      Allen W. Bryan Jr., Charles W. O'Donnell, Matthew Menke, Lenore J. Cowen, Susan Lindquist and Bonnie Berger

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23203

    8. Protein loop closure using orientational restraints from NMR data (pages 433–453)

      Chittaranjan Tripathy, Jianyang Zeng, Pei Zhou and Bruce Randall Donald

      Version of Record online: 13 DEC 2011 | DOI: 10.1002/prot.23207

    9. Structural characterization by nuclear magnetic resonance of the impact of phosphorylation in the proline-rich region of the disordered Tau protein (pages 454–462)

      Nathalie Sibille, Isabelle Huvent, Caroline Fauquant, Dries Verdegem, Laziza Amniai, Arnaud Leroy, Jean-Michel Wieruszeski, Guy Lippens and Isabelle Landrieu

      Version of Record online: 9 NOV 2011 | DOI: 10.1002/prot.23210

    10. Super folds, networks, and barriers (pages 463–470)

      Sean Burke and Ron Elber

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23212

    11. Illuminating the early signaling pathway of a fungal light-oxygen-voltage photoreceptor (pages 471–481)

      Emanuel Peter, Bernhard Dick and Stephan A. Baeurle

      Version of Record online: 12 NOV 2011 | DOI: 10.1002/prot.23213

    12. Predicting nucleic acid binding interfaces from structural models of proteins (pages 482–489)

      Iris Dror, Shula Shazman, Srayanta Mukherjee, Yang Zhang, Fabian Glaser and Yael Mandel-Gutfreund

      Version of Record online: 16 NOV 2011 | DOI: 10.1002/prot.23214

    13. The dual role of fragments in fragment-assembly methods for de novo protein structure prediction (pages 490–504)

      Julia Handl, Joshua Knowles, Robert Vernon, David Baker and Simon C. Lovell

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23215

    14. Structural and binding studies of the C-terminal domains of yeast TFIIF subunits Tfg1 and Tfg2 (pages 519–529)

      Adina M. Kilpatrick, Leonardus M.I. Koharudin, Guillermo A. Calero and Angela M. Gronenborn

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23217

    15. Representing and comparing protein folds and fold families using three-dimensional shape-density representations (pages 530–545)

      Lazaros Mavridis, Anisah W. Ghoorah, Vishwesh Venkatraman and David W. Ritchie

      Version of Record online: 12 NOV 2011 | DOI: 10.1002/prot.23218

    16. A temperature-dependent conformational change of NADH oxidase from Thermus thermophilus HB8 (pages 546–555)

      Eric D. Merkley, Valerie Daggett and William W. Parson

      Version of Record online: 12 NOV 2011 | DOI: 10.1002/prot.23219

    17. Minimal ensembles of side chain conformers for modeling protein–protein interactions (pages 591–601)

      Dmitri Beglov, David R. Hall, Ryan Brenke, Maxim V. Shapovalov, Roland L. Dunbrack Jr., Dima Kozakov and Sandor Vajda

      Version of Record online: 22 NOV 2011 | DOI: 10.1002/prot.23222

    18. Temperature-dependent study reveals that dynamics of hydrophobic residues plays an important functional role in the mitochondrial Tim9–Tim10 complex (pages 602–615)

      Ekaterina Ivanova, Jiayun Pang, Thomas A. Jowitt, Guanhua Yan, Jim Warwicker, Michael J. Sutcliffe and Hui Lu

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23224

  3. Structure Notes

    1. Top of page
    2. Short Communications
    3. Research Articles
    4. Structure Notes
    1. Structural characterization of human Uch37 (pages 649–654)

      Sethe E. Burgie, Craig A. Bingman, Ameet B. Soni and George N. Phillips Jr.

      Version of Record online: 26 SEP 2011 | DOI: 10.1002/prot.23147

    2. Structure of the DNA-bound T-box domain of human TBX1, a transcription factor associated with the DiGeorge syndrome (pages 655–660)

      Kamel El Omari, Julie De Mesmaeker, Dimple Karia, Helen Ginn, Shoumo Bhattacharya and Erika J. Mancini

      Version of Record online: 17 NOV 2011 | DOI: 10.1002/prot.23208

    3. Crystal structure of homoisocitrate dehydrogenase from Schizosaccharomyces pombe (pages 661–666)

      Stacie L. Bulfer, Jenna M. Hendershot and Raymond C. Trievel

      Version of Record online: 22 NOV 2011 | DOI: 10.1002/prot.23231

    4. Solution NMR structure of BT_0084, a conjugative transposon lipoprotein from Bacteroides thetaiotamicron (pages 667–670)

      Theresa A. Ramelot, Yunhuang Yang, Rong Xiao, Thomas B. Acton, John K. Everett, Gaetano T. Montelione and Michael A. Kennedy

      Version of Record online: 24 NOV 2011 | DOI: 10.1002/prot.23235

    5. Solution NMR structure of Asl3597 from Nostoc sp. PCC7120, the first structure from protein domain family PF12095, reveals a novel fold (pages 671–675)

      Erik A. Feldmann, Theresa A. Ramelot, Yunhuang Yang, Rong Xiao, Thomas B. Acton, John K. Everett, Gaetano T. Montelione and Michael A. Kennedy

      Version of Record online: 24 NOV 2011 | DOI: 10.1002/prot.23236

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