Nucleic Acids Research, 2004, Vol. 32, Database issue D189-D192
© 2004 Oxford University Press
The ASTRAL Compendium in 2004
1 Berkeley Structural Genomics Center, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA, 2 Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA, 3 Institute of Molecular Biology, University of Oregon, Eugene, OR 97403, USA, 4 MRC Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH, UK and 5 Department of Structural Biology, D-109 Fairchild, Stanford University, Stanford, CA 94305, USA
*To whom correspondence should be addressed at Department of Plant and Microbial Biology, 461A Koshland Hall, University of California, Berkeley, CA 94720-3102, USA. Tel: +1 510 643 9131; Fax: +1 208 279 8978; Email: brenner{at}compbio.berkeley.edu
The ASTRAL Compendium provides several databases and tools to aid in the analysis of protein structures, particularly through the use of their sequences. Partially derived from the SCOP database of protein structure domains, it includes sequences for each domain and other resources useful for studying these sequences and domain structures. The current release of ASTRAL contains 54 745 domains, more than three times as many as the initial release 4 years ago. ASTRAL has undergone major transformations in the past 2 years. In addition to several complete updates each year, ASTRAL is now updated on a weekly basis with preliminary classifications of domains from newly released PDB structures. These classifications are available as a stand-alone database, as well as integrated into other ASTRAL databases such as representative subsets. To enhance the utility of ASTRAL to structural biologists, all SCOP domains are now made available as PDB-style coordinate files as well as sequences. In addition to sequences and representative subsets based on SCOP domains, sequences and subsets based on PDB chains are newly included in ASTRAL. Several search tools have been added to ASTRAL to facilitate retrieval of data by individual users and automated methods. ASTRAL may be accessed at http://astral.stanford. edu/.
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