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The PDB file format was invented in 1972 [2] [3] as a human-readable file that would allow researchers to exchange the atomic coordinates in a given protein through a database system. Its fixed-column width format is limited to 80 or 140 [ 4 ] columns, which was based on the width of the computer punch cards that were previously used to ...
Proteins: Structure, Function, and Bioinformatics is a monthly peer-reviewed scientific journal published by John Wiley & Sons, which was established in 1986 by Cyrus Levinthal. The journal covers research on all aspects protein biochemistry , including computation, function, structure, design, and genetics.
database of comparative protein structure models Protein model databases SIMAP: database of protein similarities computed using FASTA: Protein model databases Swiss-model: server and repository for protein structure models Protein model databases AAindex: database of amino acid indices, amino acid mutation matrices, and pair-wise contact potentials
The worldwide Protein Data Bank [12] is an excellent source of protein and nucleic acid molecular coordinate data. The data is three-dimensional and provided in Protein Data Bank (PDB) format. eMolecules is a commercial database for molecular data. The data includes a two-dimensional structure diagram and a smiles string for each compound.
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The file format initially used by the PDB was called the PDB file format. The original format was restricted by the width of computer punch cards to 80 characters per line. Around 1996, the "macromolecular Crystallographic Information file" format, mmCIF, which is an extension of the CIF format was phased in. mmCIF became the standard format ...
CIF was developed by the IUCr Working Party on Crystallographic Information in an effort sponsored by the IUCr Commission on Crystallographic Data and the IUCr Commission on Journals. The file format was initially published by Hall, Allen, and Brown [1] and has since been revised, most recently versions 1.1 and 2.0. [2]
Protein Science is a peer-reviewed scientific journal covering research on the structure, function, and biochemical significance of proteins, their role in molecular and cell biology, genetics, and evolution, and their regulation and mechanisms of action. It is published by Wiley-Blackwell on behalf of The Protein Society.