Learn to use the RCSB Protein Data Bank, or PDB, a tremendous resource that provides a variety of tools and resources for accessing data in the PDB archive. The PDB archive contains information about experimentally-determined structures of proteins, nucleic acids, and complex assemblies. As a member of the wwPDB, the RCSB PDB not only provides tools for access PDB archive data but they also curate and annotate PDB data. Researchers can access images of structures, as well as detailed experimental data. Links to other important details such as family and domain information, ligand details, pathway data, and more, can also be found. Many tools to examine and manipulate the three-dimensional structures are available. The RCSB PDB also provides extensive educational resources, including a molecule of the month feature and other materials that can be used to understand the basics of structural biology.
You will learn:
This tutorial is a part of the tutorial group Protein-centric and protein structure resources. You might find the other tutorials in the group interesting:
Pfam: Protein Domain families
UniProt: UniProt, Universal Protein Resource
MMDB: Molecular Modeling Database at NCBI
Entrez Protein: NCBI's Entrez Protein for amino acid-centric information
Structural Biology Knowledgebase: The Protein Structure Initiative Structural Biology Knowledgebase
Proteins : Tools that are primarily used in the storage, retrieval, or exploration of amino acid based data. Some tools may also involve nucleotide sequence information.
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Recent BioMed Central research articles citing this resource
Cortes-Ciriano Isidro et al., Prediction of the potency of mammalian cyclooxygenase inhibitors with ensemble proteochemometric modeling Graphical Abstract. Journal of Cheminformatics (2015) doi:10.1186/s13321-014-0049-z
Li Guangdi et al., A new ensemble coevolution system for detecting HIV-1 protein coevolution. Biology Direct (2015) doi:10.1186/s13062-014-0031-8
Tahoun Amin et al., Functional analysis of bovine TLR5 and association with IgA responses of cattle following systemic immunisation with H7 flagella. Veterinary Research (2015) doi:10.1186/s13567-014-0135-2
Ohkouchi Naohiko et al., Biochemical and physiological bases for the use of carbon and nitrogen isotopes in environmental and ecological studies Biogeosciences. Progress in Earth and Planetary Science (2015) doi:10.1186/s40645-015-0032-y
El Frihmat Yassine et al., Reconstruction of productivity signal and deep-water conditions in Moroccan Atlantic margin (~35°N) from the last glacial to the Holocene Earth and Environmental Sciences. SpringerPlus (2015) doi:10.1186/s40064-015-0853-6