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RCSB Protein Data Bank (RCSB PDB) enables breakthroughs in science and education by providing access and tools for exploration, visualization, and analysis of: Experimentally-determined 3D structures from the Protein Data Bank (PDB) archive. Computed Structure Models (CSM) from AlphaFold DB and ModelArchive.
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Download Multiple Files from the PDB Archive. For downloading large amounts of data files, users are encouraged to use this shell script for batch download. Individual data files, including 3DEM maps and NMR NEF files, can also be downloaded from Structure Summary pages.
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Specific information about the molecule(s) of interest can be used to query the 3D structure archive (including experimental structures and CSMs). Basic and advanced search options are available to search 3D structures available from RCSB.org. 1. Basic Searchcan be run from any page on the RCSB PDB Website by simply typing a search term or a protei...
Currently groups of experimental structures are organized and classified in various ways so that users may explore them based on their specific classifications using the Browse Annotationsfeature. For example, you may navigate through the archive using any one of several classification hierarchies, such as SCOP or GO (Gene Ontology), EC (Enzyme cla...
Once a search query has been executed using either Basic Search, Advanced Search Query Builder, or the Browse options, the search results can be listed, sorted, grouped and/or further refined using the 'Refinements' panel. The Advanced Search Query Builder displayed at the top of the search results page allows users to include additional search cri...
Many pages on the RCSB PDB site contain links to launch searches. For example, from the Structure Summary page, each listed author contains a link to the search page. Clicking that link will run a search for all structures for which that author is listed as the audit author.
Searches can be saved and run later using the MyPDB feature. MyPDB also allows you to schedule weekly email notifications of newly released structures that match a given search query. See the MyPDB documentationfor more details.
4 天前 · Complete current list of structures indexed by NAKB, with mappings to PDB and NDB ids, polymer composition, and abbreviated experimental method. NAKB's primary index is the PDB id for all PDB entries. The NDB id is only used as primary index id for NDB-only entries.
As a member of the wwPDB, the RCSB PDB curates and annotates PDB data according to agreed upon standards. The RCSB PDB also provides a variety of tools and resources. Users can perform simple and advanced searches based on annotations relating to sequence, structure and function. These molecules are visualized, downloaded, and analyzed by users who range from students to specialized scientists.
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Swiss-PdbViewer (aka DeepView) is an application that provides a user friendly interface allowing to analyze several proteins at the same time. The proteins can be superimposed in order to deduce structural alignments and compare their active sites or any other relevant parts.
