Latest Website Release

09/13

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A new home page widget to explore the PDB archive.

New and enhanced features have been added to www.pdb.org, including:

Top search bar: The redesigned top search bar helps users easily and intuitively create both broad and precise searches. Start typing in the box provided to access a suggestion box of related terms and links to searches. This box can be used to search a variety of categories, or limited to citation author, macromolecule name, sequence, or ligand.

The order of results of a PDB text search or a sequence search are now based on the relevance of the term (for a text search) or the alignment score (for a sequence search).

Explore Archive Widget: Tour the PDB archive by "drilling-down" on significant properties of structures like "Organism" and "Polymer type", with just a few clicks using the home page's new Explore Archive widget. The "Explore Archive" widget also gives a quick statistical overview of the PDB. Users browse can browse the charts individually, or view them all together by clicking on the "Show all" link.

This widget applies the same drill down options available from each set of search results to the contents of the entire archive.

PDB-101 Structure Focus: Learn about the individual entries discussed in Molecule of the Month articles. Each Structure Focus page provides a description that explains why it was selected as an example structure, and offers an interactive 3D representation of the structure, sequence display, ligand information, and links to any other articles discussed in the Molecule of the Month feature. As an example, see the Structure Focus on hemoglobin entry 2hhb.

PDB-101 is a unique view of the RCSB PDB that packages together the resources of interest to teachers, students, and the general public.

Search for structures by protein modification. The Protein Modification Browser was constructed based on protein modification ontology (PSI-MOD) from the Proteomics Standards Initiative (http://www.psidev.info/). From here users can browse protein residue modifications, view the number of associated PDB entries, and search for associated structures.

The Protein Modification options in Advanced Search have been expanded to include the protein modification source type (Name, Keyword, RESID, PSI-MOD, and Chemical Component Dictionary) and the associated name/ID of the modification.

The What's New page has complete descriptions of all the new features.