Full Answer
How do you cite PDBsum?
PDBsum is a database that provides an overview of the contents of each 3D macromolecular structure deposited in the Protein Data Bank....PDBsum.ContentAuthorsRoman Laskowski & al. (1997)Primary citationPMID 9433130AccessWebsitewww.ebi.ac.uk/pdbsum/8 more rows
Which database comprises the secondary structures of all PDB entries?
PDBsum is a web server providing structural information on the entries in the Protein Data Bank (PDB). The analyses are primarily image-based and include protein secondary structure, protein-ligand and protein-DNA interactions, PROCHECK analyses of structural quality, and many others.05-Sept-2017
What does PDB file do?
pdb file holds debugging and project state information that allows incremental linking of a Debug configuration of your app. The Visual Studio debugger uses . pdb files to determine two key pieces of information while debugging: The source file name and line number to display in the Visual Studio IDE.27-Jan-2022
Where do I find my PDB code?
Every released entry in the PDB has an automatically-generated page in Proteopedia. To find it, simply enter the PDB code in the search slot found at the left of this (and every) page in Proteopedia. Proteopedia is updated once each week, shortly following the weekly new release cycle at the PDB.
Abstract
PDBsum is a web-based database providing a largely pictorial summary of the key information on each macromolecular structure deposited at the Protein Data Bank (PDB).
INTRODUCTION
To date, the 3D structures of over 13 000 biological macromolecules have been determined experimentally, principally by X-ray crystallography and NMR spectroscopy. The majority of these are protein structures, including protein–DNA and protein–ligand complexes.
DESCRIPTION
The PDBsum database at http://www.biochem.ucl.ac.uk/bsm/pdbsum was created in 1995 ( 4 ). Its aim was to provide an at-a-glance summary of the molecules contained in each PDB entry (i.e. protein and DNA/RNA chains, small-molecule ligands, metal ions and waters), together with annotations and analyses of their key structural features.
NEW FEATURES
The first of the additions relates only to protein–DNA and DNA–ligand complexes. The interactions between the DNA chains and any other molecules in the complex are shown schematically in a diagram generated by the NUCPLOT ( 11) program.
ACKNOWLEDGEMENTS
PDBsum is maintained at University College, London. The authors of the programs used in generating and running the PDBsum database include David Smith, Gail Hutchinson, Alex Michie, Andrew Martin, Ian McDonald, Andrew Wallace, Nick Luscombe, Duncan Milburn and Atsushi Kasuya.