Open AccessDeposit3D : a tool for automating structure depositions to the Protein Data Bank
Author(s) -
Hendle J.,
Burley S. K.,
Badger J.,
Kissinger C. R.
Publication year - 2005
Publication title -
acta crystallographica section f
Language(s) - English
Resource type - Journals
ISSN - 1744-3091
DOI - 10.1107/s1744309105026126
Subject(s) - upload , protein data bank , pipeline (software) , protein data bank (rcsb pdb) , structural genomics , annotation , computer science , data bank , process (computing) , interface (matter) , database , world wide web , chemistry , protein structure , operating system , artificial intelligence , biochemistry , bubble , maximum bubble pressure method , stereochemistry , telecommunications
Almost all successful protein structure‐determination projects in the public sector culminate in a structure deposition to the Protein Data Bank (PDB). In order to expedite the deposition proces, Deposit3D has been developed. This command‐line script calculates or gathers all the required structure‐deposition information and outputs this data into a mmCIF file for subsequent upload through the RCSB PDB ADIT interface. Deposit3D might be particularly useful for structural genomics pipeline projects because it allows workers involved with various stages of a structure‐determination project to pool their different categories of annotation information before starting a deposition session.