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Build complex queries with Advanced Search
06/21
Advanced search provides the capability of combining multiple searches of specific types of data in a logical AND or OR. The result is a list of structures that comply with ALL or ANY of the search criteria, respectively.
Individual data items are organized by category; contextual help and examples are available by selecting . Recently added items include protein modifications, Pfam ID, and EM structures with experimental data. Currently, users can build searches based on:
- ID(s) and Keywords: PDB, PubMed, UniProtKB, Pfam IDs; text searching
- Structure Annotation: Structure title, description; and macromolecule name
- Deposition: Author name; Deposit Date; Release Date; Latest Released Structures; Latest Modified Structures; Structural Genomics Project
- Structure Features: Macromolecule Type; Number of Chains (asymmetric unit or biological assembly), entities; Models, and Disulfide Bonds; Molecular Weight; Secondary Structure Content; secondary structure length; SCOP, CATH, taxonomy
- Sequence Features: sequence; translated nucleotide sequence; sequence motif; chain length; protein modifications; genome location
- Chemical Components: name; ID; InChi descriptor; SMILES/SMARTS; molecular weight; chemical formula; binding affinity; has ligands; has modified residues
- Biology: Source; expression organism; Enzyme Classification; biological process; cell component; molecular function; Transporter Classification
- Methods: experimental method; X-ray resolution, R factor, diffraction source, reflections, cell dimensions, software, space group, crystal properties, detector; EM assembly
- Publication: citation; MeSH terms; PubMed abstract
- Misc: Has external links
The number of entries matching each individual query can be shown before running the full Advanced Search. Searches can also be filtered by removing sequence similarity.
Advanced Searches can be stored in MyPDB to be run or modified at any time.
