Proteins: Structure, Function, and Bioinformatics

Cover image for Vol. 84 Issue 2

Early View (Online Version of Record published before inclusion in an issue)

Edited By: Bertrand Garcia-Moreno

Impact Factor: 2.627

ISI Journal Citation Reports © Ranking: 2014: 37/73 (Biophysics); 148/290 (Biochemistry & Molecular Biology)

Online ISSN: 1097-0134

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  1. 1 - 32
  1. Articles

    1. The role of negative selection in protein evolution revealed through the energetics of the native state ensemble

      Jordan Hoffmann, James O. Wrabl and Vincent J. Hilser

      Article first published online: 13 FEB 2016 | DOI: 10.1002/prot.24989

    2. You have full text access to this OnlineOpen article
      Epitope mapping and structural basis for the recognition of phosphorylated tau by the anti-tau antibody AT8

      Thomas J. Malia, Alexey Teplyakov, Robin Ernst, Sheng-Jiun Wu, Eilyn R. Lacy, Xuesong Liu, Marc Vandermeeren, Marc Mercken, Jinquan Luo, Raymond W. Sweet and Gary L. Gilliland

      Article first published online: 5 FEB 2016 | DOI: 10.1002/prot.24988

    3. Solution structure of the calmodulin-like C-terminal domain of Entamoeba α-actinin2

      Göran Karlsson, Cecilia Persson, Maxim Mayzel, Mattias Hedenström and Lars Backman

      Article first published online: 5 FEB 2016 | DOI: 10.1002/prot.24992

    4. A genetic and physical study of the interdomain linker of E. Coli AraC protein-a trans-subunit communication pathway

      Fabiana Malaga, Ory Mayberry, David J. Park, Michael E. Rodgers, Dmitri Toptygin and Robert F. Schleif

      Article first published online: 5 FEB 2016 | DOI: 10.1002/prot.24990

    5. Crystal structure of archaeal ketopantoate reductase complexed with coenzyme a and 2-oxopantoate provides structural insights into feedback regulation

      Yoshiki Aikawa, Yuichi Nishitani, Hiroya Tomita, Haruyuki Atomi and Kunio Miki

      Article first published online: 3 FEB 2016 | DOI: 10.1002/prot.24984

    6. Insights into regioselective metabolism of mefenamic acid by cytochrome P450 BM3 mutants through crystallography, docking, molecular dynamics, and free energy calculations

      Luigi Capoferri, Rasmus Leth, Ernst ter Haar, Arun K. Mohanty, Peter D. J. Grootenhuis, Eduardo Vottero, Jan N. M. Commandeur, Nico P. E. Vermeulen, Flemming Steen Jørgensen, Lars Olsen and Daan P. Geerke

      Article first published online: 3 FEB 2016 | DOI: 10.1002/prot.24985

    7. Water and ion permeability of a claudin model: A computational study

      Rozita Laghaei, Alan S. L. Yu and Rob D. Coalson

      Article first published online: 1 FEB 2016 | DOI: 10.1002/prot.24969

    8. Conformation of membrane-bound proteins revealed by vacuum-ultraviolet circular-dichroism and linear-dichroism spectroscopy

      Koichi Matsuo, Yasuyuki Maki, Hirofumi Namatame, Masaki Taniguchi and Kunihiko Gekko

      Article first published online: 1 FEB 2016 | DOI: 10.1002/prot.24981

    9. Strategies to reduce end-product inhibition in family 48 glycoside hydrolases

      Mo Chen, Lintao Bu, Markus Alahuhta, Roman Brunecky, Qi Xu, Vladimir V. Lunin, John W. Brady, Michael F. Crowley, Michael E. Himmel and Yannick J. Bomble

      Article first published online: 1 FEB 2016 | DOI: 10.1002/prot.24965

    10. CASP 11 target classification

      Lisa N. Kinch, Wenlin Li, R. Dustin Schaeffer, Roland L. Dunbrack, Bohdan Monastyrskyy, Andriy Kryshtafovych and Nick V. Grishin

      Article first published online: 27 JAN 2016 | DOI: 10.1002/prot.24982

    11. Evaluation of free modeling targets in CASP11 and ROLL

      Lisa N. Kinch, Wenlin Li, Bohdan Monastyrskyy, Andriy Kryshtafovych and Nick V. Grishin

      Article first published online: 20 JAN 2016 | DOI: 10.1002/prot.24973

    12. COMSAT: Residue contact prediction of transmembrane proteins based on support vector machines and mixed integer linear programming

      Huiling Zhang, Qingsheng Huang, Zhendong Bei, Yanjie Wei and Christodoulos A. Floudas

      Article first published online: 20 JAN 2016 | DOI: 10.1002/prot.24979

    13. Structure and functional characterization of a bile acid 7α dehydratase BaiE in secondary bile acid synthesis

      Shiva Bhowmik, Hsien-Po Chiu, David H. Jones, Hsiu-Ju Chiu, Mitchell D. Miller, Qingping Xu, Carol L. Farr, Jason M. Ridlon, James E. Wells, Marc-André Elsliger, Ian A. Wilson, Phillip B. Hylemon and Scott A. Lesley

      Article first published online: 18 JAN 2016 | DOI: 10.1002/prot.24971

    14. Contact-assisted protein structure modeling by global optimization in CASP11

      Keehyoung Joo, InSuk Joung, Qianyi Cheng, Sung Jong Lee and Jooyoung Lee

      Article first published online: 11 JAN 2016 | DOI: 10.1002/prot.24975

    15. Analysis of free modeling predictions by RBO aleph in CASP11

      Mahmoud Mabrouk, Tim Werner, Michael Schneider, Ines Putz and Oliver Brock

      Article first published online: 26 NOV 2015 | DOI: 10.1002/prot.24950

    16. New encouraging developments in contact prediction: Assessment of the CASP11 results

      Bohdan Monastyrskyy, Daniel D'Andrea, Krzysztof Fidelis, Anna Tramontano and Andriy Kryshtafovych

      Article first published online: 17 NOV 2015 | DOI: 10.1002/prot.24943

    17. Template-free modeling by LEE and LEER in CASP11

      InSuk Joung, Sun Young Lee, Qianyi Cheng, Jong Yun Kim, Keehyoung Joo, Sung Jong Lee and Jooyoung Lee

      Article first published online: 17 NOV 2015 | DOI: 10.1002/prot.24944

    18. You have full text access to this OnlineOpen article
      Some of the most interesting CASP11 targets through the eyes of their authors

      Andriy Kryshtafovych, John Moult, Arnaud Baslé, Alex Burgin, Timothy K. Craig, Robert A. Edwards, Deborah Fass, Marcus D. Hartmann, Mateusz Korycinski, Richard J. Lewis, Donald Lorimer, Andrei N. Lupas, Janet Newman, Thomas S. Peat, Kurt H. Piepenbrink, Janani Prahlad, Mark J. van Raaij, Forest Rohwer, Anca M. Segall, Victor Seguritan, Eric J. Sundberg, Abhimanyu K. Singh, Mark A. Wilson and Torsten Schwede

      Article first published online: 16 NOV 2015 | DOI: 10.1002/prot.24942

    19. Protein structure refinement with adaptively restrained homologous replicas

      Dennis Della Corte, André Wildberg and Gunnar F. Schröder

      Article first published online: 27 OCT 2015 | DOI: 10.1002/prot.24939

    20. Massive integration of diverse protein quality assessment methods to improve template based modeling in CASP11

      Renzhi Cao, Debswapna Bhattacharya, Badri Adhikari, Jilong Li and Jianlin Cheng

      Article first published online: 29 SEP 2015 | DOI: 10.1002/prot.24924

    21. Methods of model accuracy estimation can help selecting the best models from decoy sets: Assessment of model accuracy estimations in CASP11

      Andriy Kryshtafovych, Alessandro Barbato, Bohdan Monastyrskyy, Krzysztof Fidelis, Torsten Schwede and Anna Tramontano

      Article first published online: 28 SEP 2015 | DOI: 10.1002/prot.24919

    22. Integration of QUARK and I-TASSER for Ab Initio Protein Structure Prediction in CASP11

      Wenxuan Zhang, Jianyi Yang, Baoji He, Sara Elizabeth Walker, Hongjiu Zhang, Brandon Govindarajoo, Jouko Virtanen, Zhidong Xue, Hong-Bin Shen and Yang Zhang

      Article first published online: 23 SEP 2015 | DOI: 10.1002/prot.24930

    23. Template-based protein structure prediction in CASP11 and retrospect of I-TASSER in the last decade

      Jianyi Yang, Wenxuan Zhang, Baoji He, Sara Elizabeth Walker, Hongjiu Zhang, Brandon Govindarajoo, Jouko Virtanen, Zhidong Xue, Hong-Bin Shen and Yang Zhang

      Article first published online: 18 SEP 2015 | DOI: 10.1002/prot.24918

    24. Template based protein structure modeling by global optimization in CASP11

      Keehyoung Joo, InSuk Joung, Sun Young Lee, Jong Yun Kim, Qianyi Cheng, Balachandran Manavalan, Jong Young Joung, Seungryong Heo, Juyong Lee, Mikyung Nam, In-Ho Lee, Sung Jong Lee and Jooyoung Lee

      Article first published online: 14 SEP 2015 | DOI: 10.1002/prot.24917

    25. CASP11 refinement experiments with ROSETTA

      Hahnbeom Park, Frank DiMaio and David Baker

      Article first published online: 14 AUG 2015 | DOI: 10.1002/prot.24862

    26. You have full text access to this OnlineOpen article
      Accurate contact predictions using covariation techniques and machine learning

      Tomasz Kosciolek and David T. Jones

      Article first published online: 14 AUG 2015 | DOI: 10.1002/prot.24863

    27. Effective protein model structure refinement by loop modeling and overall relaxation

      Gyu Rie Lee, Lim Heo and Chaok Seok

      Article first published online: 22 JUL 2015 | DOI: 10.1002/prot.24858

  2. Structure Notes

    1. Crystal structure of a Baeyer–Villiger flavin-containing monooxygenase from Staphylococcus aureus MRSA strain MU50

      William C. Hwang, Qingping Xu, Bainan Wu and Adam Godzik

      Article first published online: 22 AUG 2014 | DOI: 10.1002/prot.24661

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  1. 1 - 32

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