Chemical Similarity Search. Find ligands bound to macromolecules by SMILES String, InChI, or Chemical Formula. Chemical Sketch Tool. Draw a molecule and use the SMILES or InChI string to search for molecules in the CCD. Browse by Annotations. PDB entries in context of annotations by various ontologies and hierarchical classification schemes ...

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 …

2023年12月21日 · RCSB PDB Advanced Search options allow you to query all data in the coordinate files and their associated annotations to rapidly find structures, polymers, and ligands relevant to the topic of interest.

2023年4月10日 · PDBsum is a pictorial database that provides an at-a-glance overview of the contents of each 3D structure deposited in the Protein Data Bank (PDB). It shows the molecule (s) that make up the structure (ie protein chains, DNA, ligands and metal ions) and schematic diagrams of the interactions between them.

The Protein database is a collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB. Protein sequences are the fundamental determinants of biological structure and …

2020年4月8日 · The rcsb-api package provides a Python interface to the RCSB PDB Search and Data APIs (an overview has been published in Journal for Molecular Biology). Use the rcsbapi.search module to fetch lists of PDB IDs corresponding to advanced query searches, and the rcsbapi.data module to fetch data about a given set of structure IDs.

Rich information about all PDB entries, multiple search and browse facilities, advanced services including PDBePISA, PDBeFold and PDBeMotif, advanced visualisation and validation of NMR and EM structures, tools for bioinformaticians.

Tools are provided to search the PDB dictionary for chemical components, to identify structure entries containing particular small molecules, and to download the 3D structures of the small molecule components in the PDB entry. A sketch tool is also provided for building new chemical definitions from reported PDB chemical components.

Browse Annotation allow users to navigate the archive by properties of polymer entities (primarily proteins), PDB entries, and assemblies. The current options available for browsing are listed below with links to the specific Browsing pages.

Python interface for the RCSB PDB Search API. This package requires Python 3.7 or later. Get it from PyPI: Or, download from GitHub. Full documentation available at readthedocs. To perform a "full-text" search for structures associated with the term "Hemoglobin", you can create a …