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Deposit3D: a tool for automating structure depositions to the Protein Data Bank.

ABSTRACT: 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 process, 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.

SUBMITTER: Badger J

PROVIDER: S-EPMC1978113 | biostudies-literature | 2005 Sep

REPOSITORIES: biostudies-literature

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Deposit3D: a tool for automating structure depositions to the Protein Data Bank.

Badger J J Hendle J J Burley S K SK Kissinger C R CR

Acta crystallographica. Section F, Structural biology and crystallization communications 20050831 Pt 9

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 process, 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 proje ...[more]

PMID: 16511167

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