MMDB: Entrez's 3D-structure database |
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| Authors: | Chen Jie Anderson John B DeWeese-Scott Carol Fedorova Natalie D Geer Lewis Y He Siqian Hurwitz David I Jackson John D Jacobs Aviva R Lanczycki Christopher J Liebert Cynthia A Liu Chunlei Madej Thomas Marchler-Bauer Aron Marchler Gabriele H Mazumder Raja Nikolskaya Anastasia N Rao Bachoti S Panchenko Anna R Shoemaker Benjamin A Simonyan Vahan Song James S Thiessen Paul A Vasudevan Sona Wang Yanli Yamashita Roxanne A Yin Jodie J Bryant Stephen H |
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| Institution: | National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA. |
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| Abstract: | Three-dimensional structures are now known within most protein families and it is likely, when searching a sequence database, that one will identify a homolog of known structure. The goal of Entrez's 3D-structure database is to make structure information and the functional annotation it can provide easily accessible to molecular biologists. To this end, Entrez's search engine provides several powerful features: (i) links between databases, for example between a protein's sequence and structure; (ii) pre-computed sequence and structure neighbors; and (iii) structure and sequence/structure alignment visualization. Here, we focus on a new feature of Entrez's Molecular Modeling Database (MMDB): Graphical summaries of the biological annotation available for each 3D structure, based on the results of automated comparative analysis. MMDB is available at: http://www.ncbi.nlm.nih.gov/Entrez/structure.html. |
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