The protein structure initiative structural genomics knowledgebase

Helen M Berman; John D Westbrook; Margaret J Gabanyi; Wendy Tao; Raship Shah; Andrei Kouranov; Torsten Schwede; Konstantin Arnold; Florian Kiefer; Lorenza Bordoli; Jürgen Kopp; Michael Podvinec; Paul D Adams; Lester G Carter; Wladek Minor; Rajesh Nair; Joshua La Baer

doi:10.1093/nar/gkn790

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The protein structure initiative structural genomics knowledgebase

Journal article

Open access

Peer reviewed

The protein structure initiative structural genomics knowledgebase

Helen M Berman, John D Westbrook, Margaret J Gabanyi, Wendy Tao, Raship Shah, Andrei Kouranov, Torsten Schwede, Konstantin Arnold, Florian Kiefer, Lorenza Bordoli, …

Nucleic acids research, Vol.37(suppl-1), pp.D365-D368

01/2009

DOI: https://doi.org/10.1093/nar/gkn790

PMCID: PMC2686438

PMID: 19010965

Abstract

The Protein Structure Initiative Structural Genomics Knowledgebase (PSI SGKB, http://kb.psi-structuralgenomics.org) has been created to turn the products of the PSI structural genomics effort into knowledge that can be used by the biological research community to understand living systems and disease. This resource provides central access to structures in the Protein Data Bank (PDB), along with functional annotations, associated homology models, worldwide protein target tracking information, available protocols and the potential to obtain DNA materials for many of the targets. It also offers the ability to search all of the structural and methodological publications and the innovative technologies that were catalyzed by the PSI's high-throughput research efforts. In collaboration with the Nature Publishing Group, the PSI SGKB provides a research library, editorials about new research advances, news and an events calendar to present a broader view of structural biology and structural genomics. By making these resources freely available, the PSI SGKB serves as a bridge to connect the structural biology and the greater biomedical communities.

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Title: The protein structure initiative structural genomics knowledgebase
Creators: Helen M Berman - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
John D Westbrook - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Margaret J Gabanyi - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Wendy Tao - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Raship Shah - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Andrei Kouranov - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Torsten Schwede - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Konstantin Arnold - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Florian Kiefer - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Lorenza Bordoli - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Jürgen Kopp - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Michael Podvinec - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Paul D Adams - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Lester G Carter - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Wladek Minor - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Rajesh Nair - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Joshua La Baer - Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, Swiss Institute of Bioinfomatics & Biozentrum, University of Basel, CH-4056 Basel, Switzerland, Biochemie-Zentrum, Heidelberg University, D-69120 Heidelberg, Germany, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22908-0736, Department of Biochemistry & Molecular Biophysics, Columbia University, New York, NY 10027 and Harvard Institute of Proteomics & Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115
Publication Details: Nucleic acids research, Vol.37(suppl-1), pp.D365-D368
Date published: 01/2009
Publisher: Oxford University Press
Academic Unit: Chemistry and Chemical Biology (SAS); Institute for Quantitative Biomedicine
Language: English
Resource Type: Journal article
Identifiers: 991031665797704646