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There are 55934 results for: content related to: A comparison of successful and failed protein interface designs highlights the challenges of designing buried hydrogen bonds

  1. You have full text access to this OnlineOpen article
    Emerging themes in the computational design of novel enzymes and protein–protein interfaces

    FEBS Letters

    Volume 587, Issue 8, April 17, 2013, Pages: 1147–1154, Sagar D. Khare and Sarel J. Fleishman

    Article first published online : 19 DEC 2012, DOI: 10.1016/j.febslet.2012.12.009

  2. AbDesign: An algorithm for combinatorial backbone design guided by natural conformations and sequences

    Proteins: Structure, Function, and Bioinformatics

    Volume 83, Issue 8, August 2015, Pages: 1385–1406, Gideon D. Lapidoth, Dror Baran, Gabriele M. Pszolla, Christoffer Norn, Assaf Alon, Michael D. Tyka and Sarel J. Fleishman

    Article first published online : 6 JUN 2015, DOI: 10.1002/prot.24779

  3. Abstracts of the 29th Annual Symposium of The Protein Society

    Protein Science

    Volume 24, Issue S1, October 2015, Pages: 1–313,

    Article first published online : 28 OCT 2015, DOI: 10.1002/pro.2823

  4. Computational de novo design of a four-helix bundle protein—DND_4HB

    Protein Science

    Volume 24, Issue 4, April 2015, Pages: 434–445, Grant S. Murphy, Bharatwaj Sathyamoorthy, Bryan S. Der, Mischa C. Machius, Surya V. Pulavarti, Thomas Szyperski and Brian Kuhlman

    Article first published online : 6 NOV 2014, DOI: 10.1002/pro.2577

  5. Computational protein design with explicit consideration of surface hydrophobic patches

    Proteins: Structure, Function, and Bioinformatics

    Volume 80, Issue 3, March 2012, Pages: 825–838, Ron Jacak, Andrew Leaver-Fay and Brian Kuhlman

    Article first published online : 16 DEC 2011, DOI: 10.1002/prot.23241

  6. A set of van der Waals and coulombic radii of protein atoms for molecular and solvent-accessible surface calculation, packing evaluation, and docking

    Proteins: Structure, Function, and Bioinformatics

    Volume 32, Issue 1, 1 July 1998, Pages: 111–127, Ai-Jun Li and Ruth Nussinov

    Article first published online : 7 DEC 1998, DOI: 10.1002/(SICI)1097-0134(19980701)32:1<111::AID-PROT12>3.0.CO;2-H

  7. Computational design of protein antigens that interact with the CDR H3 loop of HIV broadly neutralizing antibody 2F5

    Proteins: Structure, Function, and Bioinformatics

    Volume 82, Issue 10, October 2014, Pages: 2770–2782, M. L. Azoitei, Y. A. Ban, O. Kalyuzhny, J. Guenaga, A. Schroeter, J. Porter, R. Wyatt and William R. Schief

    Article first published online : 31 JUL 2014, DOI: 10.1002/prot.24641

  8. Computational design of second-site suppressor mutations at protein–protein interfaces

    Proteins: Structure, Function, and Bioinformatics

    Volume 78, Issue 4, March 2010, Pages: 1055–1065, Deanne W. Sammond, Ziad M. Eletr, Carrie Purbeck and Brian Kuhlman

    Article first published online : 16 OCT 2009, DOI: 10.1002/prot.22631

  9. Combined computational design of a zinc-binding site and a protein–protein interaction: One open zinc coordination site was not a robust hotspot for de novo ubiquitin binding

    Proteins: Structure, Function, and Bioinformatics

    Volume 81, Issue 7, July 2013, Pages: 1245–1255, Bryan S. Der, Raamesh K. Jha, Steven M. Lewis, Peter M. Thompson, Gurkan Guntas and Brian Kuhlman

    Article first published online : 20 APR 2013, DOI: 10.1002/prot.24280

  10. Specific interactions for ab initio folding of protein terminal regions with secondary structures

    Proteins: Structure, Function, and Bioinformatics

    Volume 72, Issue 2, 1 August 2008, Pages: 793–803, Yuedong Yang and Yaoqi Zhou

    Article first published online : 7 FEB 2008, DOI: 10.1002/prot.21968

  11. You have full text access to this OnlineOpen article
    Structure-guided forcefield optimization

    Proteins: Structure, Function, and Bioinformatics

    Volume 79, Issue 6, June 2011, Pages: 1898–1909, Yifan Song, Michael Tyka, Andrew Leaver-Fay, James Thompson and David Baker

    Article first published online : 12 APR 2011, DOI: 10.1002/prot.23013

  12. AB-Bind: Antibody binding mutational database for computational affinity predictions

    Protein Science

    Volume 25, Issue 2, February 2016, Pages: 393–409, Sarah Sirin, James R. Apgar, Eric M. Bennett and Amy E. Keating

    Article first published online : 6 NOV 2015, DOI: 10.1002/pro.2829

  13. An analytical method for computing atomic contact areas in biomolecules

    Journal of Computational Chemistry

    Volume 34, Issue 2, 15 January 2013, Pages: 105–120, Paul Mach and Patrice Koehl

    Article first published online : 10 SEP 2012, DOI: 10.1002/jcc.23111

  14. Structure of a designed tetrahedral protein assembly variant engineered to have improved soluble expression

    Protein Science

    Volume 24, Issue 10, October 2015, Pages: 1695–1701, Jacob B. Bale, Rachel U. Park, Yuxi Liu, Shane Gonen, Tamir Gonen, Duilio Cascio, Neil P. King, Todd O. Yeates and David Baker

    Article first published online : 6 AUG 2015, DOI: 10.1002/pro.2748

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    De novo structure generation using chemical shifts for proteins with high-sequence identity but different folds

    Protein Science

    Volume 19, Issue 2, February 2010, Pages: 349–356, Yang Shen, Philip N. Bryan, Yanan He, John Orban, David Baker and Ad Bax

    Article first published online : 8 DEC 2009, DOI: 10.1002/pro.303

  16. Rebuilding a macromolecular membrane complex at the atomic scale: Case of the Kir6.2 potassium channel coupled to the muscarinic acetylcholine receptor M2

    Proteins: Structure, Function, and Bioinformatics

    Volume 82, Issue 9, September 2014, Pages: 1694–1707, Nicolas Sapay, Argel Estrada-Mondragon, Christophe Moreau, Michel Vivaudou and Serge Crouzy

    Article first published online : 18 FEB 2014, DOI: 10.1002/prot.24521

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    Contact order and ab initio protein structure prediction

    Protein Science

    Volume 11, Issue 8, August 2002, Pages: 1937–1944, Richard Bonneau, Ingo Ruczinski, Jerry Tsai and David Baker

    Article first published online : 1 JAN 2009, DOI: 10.1110/ps.3790102

  18. Improving fragment quality for de novo structure prediction

    Proteins: Structure, Function, and Bioinformatics

    Volume 82, Issue 9, September 2014, Pages: 2240–2252, Rojan Shrestha and Kam Y. J. Zhang

    Article first published online : 2 MAY 2014, DOI: 10.1002/prot.24587

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    In This Issue

    Protein Science

    Volume 22, Issue 1, January 2013,

    Article first published online : 13 DEC 2012, DOI: 10.1002/pro.2197

  20. SimFold energy function for de novo protein structure prediction: Consensus with Rosetta

    Proteins: Structure, Function, and Bioinformatics

    Volume 62, Issue 2, 1 February 2006, Pages: 381–398, Yoshimi Fujitsuka, George Chikenji and Shoji Takada

    Article first published online : 17 NOV 2005, DOI: 10.1002/prot.20748