About - MolProbity Help

Citation

Please cite one (or more) of the appropriate papers when referring to MolProbity in print or during a presentation:

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 (2010) MolProbity: all-atom structure validation for macromolecular crystallography. Acta Crystallographica D66: 12-21.

Ian W. Davis, Andrew Leaver-Fay, Vincent B. Chen, Jeremy N. Block, Gary J. Kapral, Xueyi Wang, Laura W. Murray, W. Bryan Arendall III, Jack Snoeyink, Jane S. Richardson and David C. Richardson (2007) MolProbity: all-atom contacts and structure validation for proteins and nucleic acids. Nucleic Acids Research 35: Web Server issue, W375-W383.

The following paper is also relevant when using MolProbity with nucleic acids:

Ian W. Davis, Laura W. Murray, Jane S. Richardson, David C. Richardson (2004) MolProbity: structure validation and all-atom contact analysis for nucleic acids and their complexes. Nucleic Acids Research. 32: W615-W619.

For citing KiNG, please use the following reference.

Vincent B. Chen, Ian W. Davis, David C. Richardson (2009) KiNG (Kinemage, Next Generation): A versatile interactive molecular and scientific visualization program. Protein Science. 18: 2403-2409.

Funding

NIH Grant GM-15000, funding Richardson Lab research for over 34 years
NIH Grant GM-61302, funding RLab for over 3 years
A HHMI Predoctoral Fellowship to IWD

PIs

David C. Richardson and Jane S. Richardson
Department of Biochemistry, Duke University
http://kinemage.biochem.duke.edu

Authors

Ian W. Davis - MolProbity, Ramachandran and rotamer analyses, KiNG
Vincent B. Chen - MolProbity, KiNG, Jiffiloop
Jeffrey J. Headd - MolProbity, Reduce, Probe, Remediator
Robert M. Immormino - MolProbity, Remediator, Reduce, Probe
W. Bryan Arendall - Flipkin, MolProbity
J. Michael Word - Reduce, Probe, Flipkin, Clashlistcluster, Dang, Scrublines
David C. Richardson - Prekin, JavaMage, Mage

The original MolProbity was coded by Ian W. Davis in the fall of 2001, as a rotation project in the Richardson laboratory. MolProbity is currently being maintained and updated by Vincent B. Chen, W. Bryan Arendall, and David C. Richardson.

MolProbity makes particularly heavy use of the programs Reduce and Probe, authored by J. Michael Word. For details, see these references:

Word, et. al. (1999) J. Mol. Biol. 285, 1711-1733
Word, et. al. (1999) J. Mol. Biol. 285, 1735-1747

MolProbity also uses standard values for bond and angle geometries, obtained from the following references:

Parkinson, et. al. New parameters for the refinement of nucleic acid-containing structures. (1996) Acta Crystallogr D Biol Crystallogr. 52, 57-64.
Engh, RA and Huber, R. Structure quality and target parameters. (2001) International Tables for Crystallography Vol F, Chapter 18.3, 382-392.

	About
Citation Please cite one (or more) of the appropriate papers when referring to MolProbity in print or during a presentation: 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 (2010) MolProbity: all-atom structure validation for macromolecular crystallography. Acta Crystallographica D66: 12-21. Ian W. Davis, Andrew Leaver-Fay, Vincent B. Chen, Jeremy N. Block, Gary J. Kapral, Xueyi Wang, Laura W. Murray, W. Bryan Arendall III, Jack Snoeyink, Jane S. Richardson and David C. Richardson (2007) MolProbity: all-atom contacts and structure validation for proteins and nucleic acids. Nucleic Acids Research 35: Web Server issue, W375-W383. The following paper is also relevant when using MolProbity with nucleic acids: Ian W. Davis, Laura W. Murray, Jane S. Richardson, David C. Richardson (2004) MolProbity: structure validation and all-atom contact analysis for nucleic acids and their complexes. Nucleic Acids Research. 32: W615-W619. For citing KiNG, please use the following reference. Vincent B. Chen, Ian W. Davis, David C. Richardson (2009) KiNG (Kinemage, Next Generation): A versatile interactive molecular and scientific visualization program. Protein Science. 18: 2403-2409. Funding NIH Grant GM-15000, funding Richardson Lab research for over 34 years NIH Grant GM-61302, funding RLab for over 3 years A HHMI Predoctoral Fellowship to IWD PIs David C. Richardson and Jane S. Richardson Department of Biochemistry, Duke University http://kinemage.biochem.duke.edu Authors Ian W. Davis - MolProbity, Ramachandran and rotamer analyses, KiNG Vincent B. Chen - MolProbity, KiNG, Jiffiloop Jeffrey J. Headd - MolProbity, Reduce, Probe, Remediator Robert M. Immormino - MolProbity, Remediator, Reduce, Probe W. Bryan Arendall - Flipkin, MolProbity J. Michael Word - Reduce, Probe, Flipkin, Clashlistcluster, Dang, Scrublines David C. Richardson - Prekin, JavaMage, Mage The original MolProbity was coded by Ian W. Davis in the fall of 2001, as a rotation project in the Richardson laboratory. MolProbity is currently being maintained and updated by Vincent B. Chen, W. Bryan Arendall, and David C. Richardson. MolProbity makes particularly heavy use of the programs Reduce and Probe, authored by J. Michael Word. For details, see these references: Word, et. al. (1999) J. Mol. Biol. 285, 1711-1733 Word, et. al. (1999) J. Mol. Biol. 285, 1735-1747 MolProbity also uses standard values for bond and angle geometries, obtained from the following references: Parkinson, et. al. New parameters for the refinement of nucleic acid-containing structures. (1996) Acta Crystallogr D Biol Crystallogr. 52, 57-64. Engh, RA and Huber, R. Structure quality and target parameters. (2001) International Tables for Crystallography Vol F, Chapter 18.3, 382-392.
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