Reuse Metadata from Previous PDB Depositions

IP
Irina Persikova
Thu, Jul 30, 2026 2:32 PM

Many structural biologists deposit multiple related entries: mutants,
ligand-bound forms, re-refinements, or follow-up EM maps from the same
project. Re-entering authors, citations, funding, macromolecules
information and experimental details for each new deposition is
repetitive and error-prone.

The wwPDB OneDep deposition system has long offered a “Based on a
previous wwPDB deposition”
option on the File upload page. This
feature has been substantially refactored and improved to make
metadata reuse faster, more selective, and more reliable across X-ray,
NMR, and EM depositions.

In order to use this feature, depositors need to provide the previous
deposition ID
(with its password, or by using ORCID authentication),
choose which metadata categories to copy, and upload new files as
usual. Selected mmCIF metadata is merged into the new entry before
annotation. The upload Summary page then shows what was imported,
skipped, or blocked. The previous entry must be deposited at the same
wwPDB site as the current entry.

Key improvements include:

  • ORCID search: authenticated users can search their own past
    depositions and don’t need to re-enter the password
  • Re-upload support: the feature can be used during re-upload
  • Selective import: depositors choose specific categories (authors,
    citation, funding, keywords, macromolecules (new option),
    method-specific experimental information)
  • Macromolecule checks: entity metadata is copied only when polymer
    chains align between structures
  • Method-aware safeguards: X-ray, NMR, and EM options appear only when
    both depositions are compatible; EM reconstruction sub-method must
    also match for EM experimental information
  • Authoritative mmCIF source: metadata is copied from the related
    entry’s annotated mmCIF record

The feature is available on the File upload page at deposit.wwpdb.org
https://deposit.wwpdb.org.

Further guidance is in the wwPDB deposition FAQ
https://www.wwpdb.org/deposition/faq and wwPDB tutorial page
https://www.wwpdb.org/deposition/tutorial.

Read the full news
here:https://www.wwpdb.org/news/news?year=2026#6a626da53bf5580b84a87d27

On behalf of the wwPDB,

--
IRINA PERSIKOVA, Ph.D.
Deputy Biocuration Lead, RCSB Protein Data Bank
Research Associate, Institute for Quantitative Biomedicine
Rutgers, The State University of New Jersey
174 Frelinghuysen Road, Piscataway NJ 08854
P: 848.445.4938 | E: irina.persikova@rcsb.org
mailto:irina.persikova@rcsb.org
rcsb.org <www.rcsb.org> | iqb.rutgers.edu http://iqb.rutgers.edu |
facebook https://www.facebook.com/RCSBPDB | twitter
https://twitter.com/buildmodels

Many structural biologists deposit multiple related entries: mutants, ligand-bound forms, re-refinements, or follow-up EM maps from the same project. Re-entering authors, citations, funding, macromolecules information and experimental details for each new deposition is repetitive and error-prone. The wwPDB OneDep deposition system has long offered a *“Based on a previous wwPDB deposition”* option on the *File upload* page. This feature has been *substantially refactored and improved* to make metadata reuse faster, more selective, and more reliable across X-ray, NMR, and EM depositions. In order to use this feature, depositors need to provide the *previous deposition ID* (with its password, or by using ORCID authentication), choose which *metadata categories* to copy, and upload new files as usual. Selected mmCIF metadata is merged into the new entry before annotation. The upload *Summary* page then shows what was imported, skipped, or blocked. The previous entry must be deposited at the same wwPDB site as the current entry. Key improvements include: * ORCID search: authenticated users can search their own past depositions and don’t need to re-enter the password * Re-upload support: the feature can be used during re-upload * Selective import: depositors choose specific categories (authors, citation, funding, keywords, macromolecules (new option), method-specific experimental information) * Macromolecule checks: entity metadata is copied only when polymer chains align between structures * Method-aware safeguards: X-ray, NMR, and EM options appear only when both depositions are compatible; EM reconstruction sub-method must also match for EM experimental information * Authoritative mmCIF source: metadata is copied from the related entry’s annotated mmCIF record The feature is available on the File upload page at deposit.wwpdb.org <https://deposit.wwpdb.org>. Further guidance is in the wwPDB deposition FAQ <https://www.wwpdb.org/deposition/faq> and wwPDB tutorial page <https://www.wwpdb.org/deposition/tutorial>. Read the full news here:https://www.wwpdb.org/news/news?year=2026#6a626da53bf5580b84a87d27 On behalf of the wwPDB, -- IRINA PERSIKOVA, Ph.D. Deputy Biocuration Lead, RCSB Protein Data Bank Research Associate, Institute for Quantitative Biomedicine Rutgers, The State University of New Jersey 174 Frelinghuysen Road, Piscataway NJ 08854 P: 848.445.4938 | E: irina.persikova@rcsb.org <mailto:irina.persikova@rcsb.org> rcsb.org <www.rcsb.org> | iqb.rutgers.edu <http://iqb.rutgers.edu> | facebook <https://www.facebook.com/RCSBPDB> | twitter <https://twitter.com/buildmodels>