Peter W Rose

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc The RCSB protein data bank: integrative view of protein, gene and 3D structural information
    Peter W Rose
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA 92093, USA
    Nucleic Acids Res 45:D271-D281. 2017
  2. pmc The RCSB Protein Data Bank: views of structural biology for basic and applied research and education
    Peter W Rose
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093, USA
    Nucleic Acids Res 43:D345-56. 2015
  3. pmc The RCSB Protein Data Bank: new resources for research and education
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 41:D475-82. 2013
  4. pmc The RCSB Protein Data Bank: redesigned web site and web services
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 39:D392-401. 2011
  5. ncbi request reprint Computational detection of the binding-site hot spot at the remodeled human growth hormone-receptor interface
    Gennady M Verkhivker
    Pfizer Global Research and Development, La Jolla Laboratories, San Diego, California 92121 1111, USA
    Proteins 53:201-19. 2003
  6. ncbi request reprint Monte Carlo simulations of the peptide recognition at the consensus binding site of the constant fragment of human immunoglobulin G: the energy landscape analysis of a hot spot at the intermolecular interface
    Gennady M Verkhivker
    Agouron Pharmaceuticals, Inc, Department of Computational Chemistry, Pfizer Company, San Diego, California 92121 1111, USA
    Proteins 48:539-57. 2002
  7. pmc Simulating disorder-order transitions in molecular recognition of unstructured proteins: where folding meets binding
    Gennady M Verkhivker
    Pfizer Global Research and Development, La Jolla Laboratories, 10777 Science Center Drive, San Diego, CA 92121, USA
    Proc Natl Acad Sci U S A 100:5148-53. 2003
  8. pmc Systematic detection of internal symmetry in proteins using CE-Symm
    Douglas Myers-Turnbull
    Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA 92093, USA
    J Mol Biol 426:2255-68. 2014
  9. pmc Quality assurance for the query and distribution systems of the RCSB Protein Data Bank
    Wolfgang F Bluhm
    University of California San Diego, La Jolla, CA 92093 0743, USA
    Database (Oxford) 2011:bar003. 2011
  10. pmc Integration of open access literature into the RCSB Protein Data Bank using BioLit
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093 0505, USA
    BMC Bioinformatics 11:220. 2010

Collaborators

Detail Information

Publications16

  1. pmc The RCSB protein data bank: integrative view of protein, gene and 3D structural information
    Peter W Rose
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA 92093, USA
    Nucleic Acids Res 45:D271-D281. 2017
    ..PDB-101 educational materials have been reorganized into a searchable website and expanded to include new features such as the Geis Digital Archive...
  2. pmc The RCSB Protein Data Bank: views of structural biology for basic and applied research and education
    Peter W Rose
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093, USA
    Nucleic Acids Res 43:D345-56. 2015
    ..Our efforts are aimed at expanding the role of 3D structure in understanding biology and medicine. ..
  3. pmc The RCSB Protein Data Bank: new resources for research and education
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 41:D475-82. 2013
    ..These improvements enable new opportunities for analyzing and understanding structure data...
  4. pmc The RCSB Protein Data Bank: redesigned web site and web services
    Peter W Rose
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA 92093 0743, USA
    Nucleic Acids Res 39:D392-401. 2011
    ..These improvements enable a range of new possibilities to analyze and understand structure data. The next generation of the RCSB PDB web site, as described here, provides a rich resource for research and education...
  5. ncbi request reprint Computational detection of the binding-site hot spot at the remodeled human growth hormone-receptor interface
    Gennady M Verkhivker
    Pfizer Global Research and Development, La Jolla Laboratories, San Diego, California 92121 1111, USA
    Proteins 53:201-19. 2003
    ....
  6. ncbi request reprint Monte Carlo simulations of the peptide recognition at the consensus binding site of the constant fragment of human immunoglobulin G: the energy landscape analysis of a hot spot at the intermolecular interface
    Gennady M Verkhivker
    Agouron Pharmaceuticals, Inc, Department of Computational Chemistry, Pfizer Company, San Diego, California 92121 1111, USA
    Proteins 48:539-57. 2002
    ....
  7. pmc Simulating disorder-order transitions in molecular recognition of unstructured proteins: where folding meets binding
    Gennady M Verkhivker
    Pfizer Global Research and Development, La Jolla Laboratories, 10777 Science Center Drive, San Diego, CA 92121, USA
    Proc Natl Acad Sci U S A 100:5148-53. 2003
    ....
  8. pmc Systematic detection of internal symmetry in proteins using CE-Symm
    Douglas Myers-Turnbull
    Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA 92093, USA
    J Mol Biol 426:2255-68. 2014
    ..1) at https://github.com/rcsb/symmetry. An interactive census of domains identified as symmetric by CE-Symm is available from http://source.rcsb.org/jfatcatserver/scopResults.jsp]. ..
  9. pmc Quality assurance for the query and distribution systems of the RCSB Protein Data Bank
    Wolfgang F Bluhm
    University of California San Diego, La Jolla, CA 92093 0743, USA
    Database (Oxford) 2011:bar003. 2011
    ..As such it provides suggestions for how other websites might be operated...
  10. pmc Integration of open access literature into the RCSB Protein Data Bank using BioLit
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093 0505, USA
    BMC Bioinformatics 11:220. 2010
    ..To exploit this opportunity we present the integration of open access literature with the RCSB Protein Data Bank (PDB)...
  11. ncbi request reprint Complexity and simplicity of ligand-macromolecule interactions: the energy landscape perspective
    Gennady M Verkhivker
    Department of Computational Chemistry, Agouron Pharmaceuticals Inc, A Pfizer Company, 10777 Science Center Drive, San Diego, California 92121 1111, USA
    Curr Opin Struct Biol 12:197-203. 2002
    ....
  12. pmc BioJava: an open-source framework for bioinformatics in 2012
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093, USA
    Bioinformatics 28:2693-5. 2012
    ..BioJava is an open-source project for processing of biological data in the Java programming language. We have recently released a new version (3.0.5), which is a major update to the code base that greatly extends its functionality...
  13. pmc Pre-calculated protein structure alignments at the RCSB PDB website
    Andreas Prlic
    San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0505 La Jolla, CA 92093 0505, USA
    Bioinformatics 26:2983-5. 2010
    ..These three applications allow users to discover novel relationships between proteins available either at the RCSB PDB or provided by the user...
  14. pmc RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank
    Gregory B Quinn
    RCSB Protein Data Bank, San Diego Supercomputer Center, University of California San Diego, La Jolla, CA 92093 0743, USA, Graduate School of Medicine, Kyoto University, Yoshidakonoecho, Sakyo Ward, Kyoto, Kyoto Prefecture 606 8501, Japan, RCSB Protein Data Bank, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, Piscataway, NJ 08854 8087 and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA 92093 0743
    Bioinformatics 31:126-7. 2015
    ..Using the app, users from the general public to expert researchers can quickly search and visualize biomolecules, and add personal annotations via the RCSB PDB's integrated MyPDB service...
  15. ncbi request reprint Hierarchy of simulation models in predicting structure and energetics of the Src SH2 domain binding to tyrosyl phosphopeptides
    Gennady M Verkhivker
    Agouron Pharmaceuticals, Inc, A Pfizer Company, 10777 Science Center Drive, San Diego, California 92121 1111, USA
    J Med Chem 45:72-89. 2002
    ....
  16. pmc Integrating genomic information with protein sequence and 3D atomic level structure at the RCSB protein data bank
    Andreas Prlic
    RCSB Protein Data Bank, University of California San Diego, San Diego Supercomputer Center, La Jolla, CA 92093, USA
    Bioinformatics 32:3833-3835. 2016
    ..We developed novel software solutions for data management and visualization, while incorporating new libraries for web-based visualization using SVG graphics...