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

J. Badger, J. Hendle, S. K. Burley, C. R. Kissinger

Research output: Contribution to journalArticlepeer-review

3 Scopus citations


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.

Original languageEnglish (US)
Pages (from-to)818-820
Number of pages3
JournalActa Crystallographica Section F: Structural Biology and Crystallization Communications
Issue number9
StatePublished - Sep 2005
Externally publishedYes

All Science Journal Classification (ASJC) codes

  • Biophysics
  • Structural Biology
  • Biochemistry
  • Genetics
  • Condensed Matter Physics


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