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There are 29742 results for: content related to: Studying and polishing the PDB's macromolecules

  1. 3Drefine: Consistent protein structure refinement by optimizing hydrogen bonding network and atomic-level energy minimization

    Proteins: Structure, Function, and Bioinformatics

    Volume 81, Issue 1, January 2013, Pages: 119–131, Debswapna Bhattacharya and Jianlin Cheng

    Version of Record online : 26 SEP 2012, DOI: 10.1002/prot.24167

  2. Evaluating protein structures determined by structural genomics consortia

    Proteins: Structure, Function, and Bioinformatics

    Volume 66, Issue 4, March 2007, Pages: 778–795, Aneerban Bhattacharya, Roberto Tejero and Gaetano T. Montelione

    Version of Record online : 21 DEC 2006, DOI: 10.1002/prot.21165

  3. Case-controlled structure validation

    Acta Crystallographica Section D

    Volume 65, Issue 2, February 2009, Pages: 140–147, Randy J. Read and Gerard J. Kleywegt

    DOI: 10.1107/S0907444908041085

  4. You have free access to this content
    Smooth statistical torsion angle potential derived from a large conformational database via adaptive kernel density estimation improves the quality of NMR protein structures

    Protein Science

    Volume 21, Issue 12, December 2012, Pages: 1824–1836, Guillermo A. Bermejo, G. Marius Clore and Charles D. Schwieters

    Version of Record online : 18 OCT 2012, DOI: 10.1002/pro.2163

  5. Use of knowledge-based restraints in phenix.refine to improve macromolecular refinement at low resolution

    Acta Crystallographica Section D

    Volume 68, Issue 4, April 2012, Pages: 381–390, Jeffrey J. Headd, Nathaniel Echols, Pavel V. Afonine, Ralf W. Grosse-Kunstleve, Vincent B. Chen, Nigel W. Moriarty, David C. Richardson, Jane S. Richardson and Paul D. Adams

    DOI: 10.1107/S0907444911047834

  6. A discriminative Ramachandran potential of mean force aimed at minimizing secondary structure bias

    Journal of Computational Chemistry

    Volume 33, Issue 7, 15 March 2012, Pages: 791–799, Sampath Koppole and Michael Schaefer

    Version of Record online : 6 JAN 2012, DOI: 10.1002/jcc.22908

  7. You have full text access to this OnlineOpen article
    Crystal structure of X-prolyl aminopeptidase fromCaenorhabditis elegans: A cytosolic enzyme with a di-nuclear active site

    FEBS Open Bio

    Volume 5, Issue 1, January 01, 2015, Pages: 292–302, Shalini Iyer, Penelope J. La-Borde, Karl A.P. Payne, Mark R. Parsons, Anthony J. Turner, R. Elwyn Isaac and K. Ravi Acharya

    Version of Record online : 2 APR 2015, DOI: 10.1016/j.fob.2015.03.013

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    Protein structure validation by generalized linear model root-mean-square deviation prediction

    Protein Science

    Volume 21, Issue 2, February 2012, Pages: 229–238, Anurag Bagaria, Victor Jaravine, Yuanpeng J. Huang, Gaetano T. Montelione and Peter Güntert

    Version of Record online : 4 JAN 2012, DOI: 10.1002/pro.2007

  9. CAD-score: A new contact area difference-based function for evaluation of protein structural models

    Proteins: Structure, Function, and Bioinformatics

    Volume 81, Issue 1, January 2013, Pages: 149–162, Kliment Olechnovič, Eleonora Kulberkytė and Česlovas Venclovas

    Version of Record online : 29 SEP 2012, DOI: 10.1002/prot.24172

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    Undergraduates improve upon published crystal structure in class assignment

    Biochemistry and Molecular Biology Education

    Volume 42, Issue 5, September/October 2014, Pages: 398–404, Scott Horowitz, Philipp Koldewey and James C. Bardwell

    Version of Record online : 18 JUL 2014, DOI: 10.1002/bmb.20811

  11. Molprobity's ultimate rotamer-library distributions for model validation

    Proteins: Structure, Function, and Bioinformatics

    Volume 84, Issue 9, September 2016, Pages: 1177–1189, Bradley J. Hintze, Steven M. Lewis, Jane S. Richardson and David C. Richardson

    Version of Record online : 23 JUN 2016, DOI: 10.1002/prot.25039

  12. A simplified homology-model builder toward highly protein-like structures: An inspection of restraining potentials

    Journal of Computational Chemistry

    Volume 33, Issue 24, 15 September 2012, Pages: 1927–1935, Tae-Rae Kim, Sangho Oh, Joshua SungWoo Yang, Sanghyuk Lee, Seokmin Shin and Jinhyuk Lee

    Version of Record online : 30 MAY 2012, DOI: 10.1002/jcc.23024

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    Assessment of template-based modeling of protein structure in CASP11

    Proteins: Structure, Function, and Bioinformatics

    Volume 84, Issue S1, September 2016, Pages: 200–220, Vivek Modi, Qifang Xu, Sam Adhikari and Roland L. Dunbrack Jr.

    Version of Record online : 15 JUN 2016, DOI: 10.1002/prot.25049

  14. Low-resolution refinement tools in REFMAC5

    Acta Crystallographica Section D

    Volume 68, Issue 4, April 2012, Pages: 404–417, Robert A. Nicholls, Fei Long and Garib N. Murshudov

    DOI: 10.1107/S090744491105606X

  15. Antibody modeling assessment

    Proteins: Structure, Function, and Bioinformatics

    Volume 79, Issue 11, November 2011, Pages: 3050–3066, Juan C. Almagro, Mary Pat Beavers, Francisco Hernandez-Guzman, Johannes Maier, Jodi Shaulsky, Kenneth Butenhof, Paul Labute, Nels Thorsteinson, Kenneth Kelly, Alexey Teplyakov, Jinquan Luo, Raymond Sweet and Gary L. Gilliland

    Version of Record online : 21 SEP 2011, DOI: 10.1002/prot.23130

  16. MolProbity: all-atom structure validation for macromolecular crystallography

    Acta Crystallographica Section D

    Volume 66, Issue 1, January 2010, Pages: 12–21, Vincent B. Chen, W. Bryan Arendall III, Jeffrey J. Headd, Daniel A. Keedy, Robert M. Immormino, Gary J. Kapral, Laura W. Murray, Jane S. Richardson and David C. Richardson

    DOI: 10.1107/S0907444909042073

  17. You have full text access to this OnlineOpen article
    Accuracy issues involved in modeling in vivo protein structures using PM7

    Proteins: Structure, Function, and Bioinformatics

    Volume 83, Issue 8, August 2015, Pages: 1427–1435, Benjamin P. Martin, Christopher J. Brandon, James J. P. Stewart and Sonja B. Braun-Sand

    Version of Record online : 6 JUN 2015, DOI: 10.1002/prot.24826

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    Crystal structure of Cmr5 from Pyrococcus furiosus and its functional implications

    FEBS Letters

    Volume 587, Issue 6, March 18, 2013, Pages: 562–568, Jeong-Hoh Park, Jiali Sun, Suk-Youl Park, Hyo-Jeong Hwang, Mi-Young Park, Minsang Shin and Jeong-Sun Kim

    Version of Record online : 28 JAN 2013, DOI: 10.1016/j.febslet.2013.01.029

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    Crystal structures of Entamoeba histolytica lysyl-tRNA synthetase reveal conformational changes upon lysine binding and a specific helix bundle domain

    FEBS Letters

    Volume 588, Issue 23, November 28, 2014, Pages: 4478–4486, Luc Bonnefond, Manuel Castro de Moura, Lluis Ribas de Pouplana and Osamu Nureki

    Version of Record online : 24 OCT 2014, DOI: 10.1016/j.febslet.2014.10.019

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    Crystal structure of family 4 uracil–DNA glycosylase fromSulfolobus tokodaii and a function of tyrosine 170 in DNA binding

    FEBS Letters

    Volume 589, Issue 19PartB, September 14, 2015, Pages: 2675–2682, Akito Kawai, Shigesada Higuchi, Masaru Tsunoda, Kazuo T. Nakamura, Yuriko Yamagata and Shuichi Miyamoto

    Version of Record online : 28 AUG 2015, DOI: 10.1016/j.febslet.2015.08.019