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|Annotation||The process of attaching additional information to biological entities. Annotation can be structural (i.e. identification of the elements from a sequence, such as protein coding regions or the location of regulatory motifs) or functional (i.e. adding biological information to the identified elements, such as the biological function of a protein domain or an entire protein, or the molecular interactions or regulatory role of a nucleotide sequence). Annotation can either be applied automatically or can be manually added (in a process called 'curation') from various sources, such as the scientific literature. Annotation can either be applied automatically or it can be curated (manually) from the scientific literature. At EMBL-EBI, we use a combination of automatic and manual annotation to enrich our databases. |
|EMDB||The Electron Microscopy Data Bank (EMDB) is a public repository for electron microscopy density maps of macromolecular complexes and subcellular structures. It covers a variety of techniques, including single-particle analysis, electron tomography, and electron (2D) crystallography. |
|Electron microscopy||Electron microscopy uses a beam of electrons to produce a magnified image of a biological specimen. As the wavelength of of an electron is 100,000 times shorter than visible light photons, an electron microscope has a much higher resolution than a light microscope. |
|Electron tomography||Electron tomography is a technique for obtaining detailed 3D structures of sub-cellular macro-molecular objects. |
|Ligand||A ligand (or het group) is a substance that specifically and reversibly binds to a biomacromolecule to form a larger complex and alters its activity or fuction. |
|Motif||Short segments of protein 3D structure, which are spatially close but not necessarily adjacent in the sequence |
|Nuclear magnetic resonance||Nuclear Magnetic Resonance (NMR) is a type of spectroscopy whereby nuclei in a magnetic field absorb and re-emit electromagnetic radiation. It has many applications throughout the physical sciences and industry and is commonly used to study the structure of organic compounds. |
|PDB||The Protein Data Bank (PDB) is an archive of experimentally determined biological macromolecular structures. It can be accessed using the following url: www.pdbe.org.
You can find out more about PDB on the WikiPedia page: http://en.wikipedia.org/wiki/Protein_Data_Bank |
|PDBe||The European resource for the collection, organisation and dissemination of data on biological macromolecular structures (www.pdbe.org). |
|SMILES||A line notation for describing the structure of Chemical species (http://en.wikipedia.org/wiki/Simplified_molecular-input_line-entry_system).
|Secondary structure||The general 3D form of local segments of biopolymers including proteins and nucleic acids |
|X-ray crystallography||An experimental technique that diffracts X-rays in crystals to determine the 3D structure of molecules. |
|curator||A professional scientist who collects, annotates, and validates information that is disseminated by biological and model organism databases. The role of a biocurator encompasses quality control of primary biological research data intended for publication, extracting and organizing data from original scientific literature, and describing the data with standard annotation protocols and vocabularies that enable powerful queries and biological database inter-operability. Curators communicate with researchers to ensure the accuracy of curated information and to foster data exchanges with research laboratories. |