Updated resources for exploring experimentally-determined PDB structures and Computed Structure Models at the RCSB Protein Data Bank is a dataset published in Nucleic Acids Research (2024). On theSindex it has a DataRank of 2.8, placing it in the top 7.7% of the data-sharing corpus. It has been cited 276 times, with 100 citing works in its 1-hop citation network. Its calibrated FAIR score is 8/100.
Ranks in the top 8% for downstream scientific impact
Linked data & code
DataRank reads this dataset's downstream impact straight off the citation graph — no black box, no proprietary weighting. How is this computed?
FAIR checklist signals are shown for context only and do not affect DataRank scoring.
Full FAIR picture · advisory
The headline score is computed from the scored criteria — the fact-shaped checks (a repository, an accession, a licence) that two independent models agree on. The advisory criteria below are real FAIR guidance but rest on judgment calls that models read differently, so they inform without moving the number.
“No new data were generated or analyzed in support of this research.”
The paper states that no new data were generated, so no persistent identifier for the study's data exists. [majority verdict 'no' (4/5 passes agreed)]
RDA-F1-01D — FAIR Data Maturity Model: 'Data is identified by a persistent identifier' (priorit · RDA-F1-02D — FAIR Data Maturity Model: 'Data is identified by a globally unique identifier' · FsF-F1-02D — F-UJI/FAIRsFAIR: 'Data is assigned a persistent identifier'
“No new data were generated or analyzed in support of this research.”
The paper generated no data, so no repository is named as holder of the study's data. [majority verdict 'no' (4/5 passes agreed)]
RDA-F4-01M — FAIR Data Maturity Model: metadata is offered so it can be harvested and indexed ( · NIH DMS Policy Element 4 (NOT-OD-21-014) — name the repository where data will be archived · NSTC Desirable Characteristics of Data Repositories (2022) — 'Long-Term Sustainability', 'Reten
“No new data were generated or analyzed in support of this research.”
No dataset identifier appears because the paper generated no data. [majority verdict 'no' (4/5 passes agreed)]
FORCE11 Joint Declaration of Data Citation Principles (2014) — data should be cited as a first- · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes · FsF-F3-01M — F-UJI: 'Metadata includes the identifier of the data it describes'
Advisory · not in the published score
“No new data were generated or analyzed in support of this research.”
The data availability statement says no new data were generated, which does not point to a repository record for the study's own data. [majority verdict 'no' (4/5 passes agreed)]
Colavizza, Hrynaszkiewicz, Staden, Whitaker & McGillivray (2020), 'The citation advantage of li · Springer Nature research data policy — Data Availability Statements: standard statement templat · RDA-F3-01M — metadata clearly and explicitly includes the identifier of the data it describes
“No new data were generated or analyzed in support of this research.”
The paper does not describe a dataset of its own, so no itemized inventory of the data exists.
RDA-F2-01M — 'Rich metadata is provided to allow discovery' (priority Essential) · FsF-F2-01M — F-UJI: 'Metadata includes descriptive core elements to support data findability' · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data'
“No new data were generated or analyzed in support of this research.”
The paper states that no new data were generated, so there is no access route to evaluate. [majority verdict 'no' (4/5 passes agreed)]
RDA-A1.1-01D — 'Data is accessible through a free access protocol' · FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · NSTC Desirable Characteristics of Data Repositories (2022) — 'Free and Easy Access'
Advisory · not in the published score
“No new data were generated or analyzed in support of this research.”
The paper explicitly states that no new data were generated, so there is no data to label an access level for. [majority verdict 'no' (4/5 passes agreed)]
FsF-A1-01M — F-UJI: 'Metadata contains access level and access conditions of the data' · RDA-A1-01M — metadata contains information to enable the user to get access to the data · COAR Controlled Vocabularies — Access Rights v1.0 (open / embargoed / restricted / metadata-onl
“No new data were generated or analyzed in support of this research.”
The paper generated no sensitive data, so no gatekeeper is named.
NIH Genomic Data Sharing Policy (NOT-OD-14-124) — controlled-access via a Data Access Committee · RDA-A1.2-01D — 'Data is accessible through an access protocol that supports authentication and · NIH DMS Policy Element 5 (NOT-OD-21-014) — Access, Distribution, or Reuse Considerations (conse
“No new data were generated or analyzed in support of this research.”
Since no new data were generated, no temporal commitment is made for this study's data. [majority verdict 'no' (4/5 passes agreed)]
NIH DMS Plan Element 4 (NOT-OD-21-014) — Data Preservation, Access, and Associated Timelines · NSTC Desirable Characteristics (2022), Organizational Infrastructure: 'Retention Policy' · RDA-A2-01M — 'Metadata is guaranteed to remain available after data is no longer available'
“No new data were generated or analyzed in support of this research.”
No file format for the study's data is named because no data were generated. [majority verdict 'no' (4/5 passes agreed)]
FsF-R1.3-02D — F-UJI: 'Data is available in a file format recommended by the target research co · RDA-R1.3-02D — data is expressed in a machine-understandable community standard · RDA-I1-01D — data uses a knowledge representation expressed in a standardised format
Advisory · not in the published score
“No new data were generated or analyzed in support of this research.”
No data community standard is named for the study's own data because no data were generated. [majority verdict 'no' (4/5 passes agreed)]
RDA-R1.3-01M — 'Metadata complies with a community standard' (priority Essential) · RDA-R1.3-01D — 'Data complies with a community standard' · RDA-I2-01M — '(Meta)data use vocabularies that follow FAIR principles'
“No new data were generated or analyzed in support of this research.”
The study's own data is nonexistent, so there are no dependencies on other resources that require identifiers. [majority verdict 'no' (4/5 passes agreed)]
RDA-I3-01M — '(meta)data include references to other (meta)data' · RDA-I3-03M — 'metadata includes qualified references to other metadata' · FsF-I3-01M — F-UJI: 'Metadata includes links between the data and its related entities'
“No new data were generated or analyzed in support of this research.”
No reuse license is attached to the study's own data because no data were generated. [majority verdict 'no' (4/5 passes agreed)]
RDA-R1.1-01M — 'Metadata includes information about the licence under which the data can be reu · RDA-R1.1-02M — 'Metadata refers to a standard reuse licence' · RDA-R1.1-03M — 'Metadata refers to a machine-understandable reuse licence'
“No new data were generated or analyzed in support of this research.”
No version token or date is given for the study's data because no data were generated.
DataCite Metadata Schema 4.6 — the 'Version' property · RDA-R1.2-01M — provenance information (which version was used is provenance) · NSTC Desirable Characteristics of Data Repositories (2022) — 'Provenance', 'Retention Policy'
“Our release of the py-rcsbsearchapi Python library (https://github.com/rcsb/py-rcsbsearchapi)”— not found in the paper; verdict downgraded
The paper provides a machine-resolvable GitHub URL for the Python library developed by the authors. [downgraded to 'partial' — no verifiable quote from the paper] [majority verdict 'partial' (3/5 passes agreed)]
NIH DMS Policy Element 2 (NOT-OD-21-014) — 'Related Tools, Software and/or Code' · FAIR4RS Principles v1.0 (Chue Hong et al., 2022; RDA/FORCE11/ReSA) — FAIR Principles for Resear · FORCE11 Software Citation Principles (Smith, Katz & Niemeyer, 2016, PeerJ CS 2:e86)
“U.S. National Science Foundation [DBI-2321666, PI: to S.K.B., RCSB PDB Core Operations]; U.S. Department of Energy [DE-SC0019749, PI to S.K.B.]; National Cancer Institute, the National Institute of Allergy and Infectious Diseases, and the National Institute of General Medical Sciences of the National Institutes of Health [R01GM157729, PI to S.K.B.]”
The paper lists specific grant numbers (e.g., DBI-2321666, DE-SC0019749, R01GM157729) from named funders. [majority verdict 'yes' (3/5 passes agreed)]
DataCite Metadata Schema 4.6 — 'FundingReference' property (funderName, funderIdentifier, award · Crossref Funder Registry — canonical funder identifiers for funding metadata · RDA-F2-01M — rich metadata provided to allow discovery (funding is part of the descriptive reco
Advisory · not in the published score
“No new data were generated or analyzed in support of this research.”
No production methods are described for the study's own data because no data were generated. [majority verdict 'no' (4/5 passes agreed)]
RDA-R1.2-01M — 'Metadata includes provenance information according to community- specific standa · FsF-R1.2-01M — F-UJI: 'Metadata includes provenance information about data creation or generati · W3C PROV-O (W3C Recommendation, 2013) — the entity/activity/agent model of provenance
“No new data were generated or analyzed in support of this research.”
No data documentation object exists because the study generated no data.
RDA-R1-01M — '(Meta)data are richly described with a plurality of accurate and relevant attribu · FsF-R1-01MD — F-UJI: 'Metadata specifies the content of the data' · NIH DMS Policy Element 3 (NOT-OD-21-014) — Standards (documentation and metadata to accompany t
Calibrated FAIR score — a parallel quality metric, independent of the DataRank citation score. See the full evaluation →
Base Score Contribution
0.844
From this paper's citation signal
Citation Network Contribution
2.0
From 100 citing papers with measurable signal
Ranked by each citer's contribution to N(p) — log1p(Cq) divided by its reference count — out of 100 citers.
U.S. National Science Foundation
Grant: DBI-2321666
U.S. Department of Energy
Grant: DE-SC0019749
National Institutes of Health
Grant: R01GM157729
Next Generation PDB
Grant: DBI-2019297
Next Generation PDB
Grant: BB/V004247/1
CIBR 19-BBSRC-NSF/BIO: Next generation PDB - FACT infrastructure with value added FAIR data supporting diverse research and education user communities
Mol* features
Grant: DBI-2129634
Mol* features
Grant: BB/W017970/1
20-BBSRC/NSF-BIO: From atoms to molecules to cells - Multi-scale tools and infrastructure for visualization of annotated 3D structure data
NSF
Grant: DBI-1756248
NSF
Grant: DBI-2112966
NSF
Grant: DBI-1756250
NSF
Grant: DBI-2112967
NIGMS
Grant: R01GM083960
NIGMS
Grant: P41GM109824
National Institutes of Health
Grant: 1F31DE019749-01A1
Dysregulation of microRNAs in HPV-Positive Oropharyngeal Cancers
National Science Foundation
Grant: 2112966
Collaborative Research: Creating mechanisms to make integrative structures of large macromolecular assemblies available from the Protein Data Bank
National Institutes of Health
Grant: 5R01GM157729-02
PDB Management by the Research Collaboratory for Structural Bioinformatics
National Science Foundation
Grant: 1756248
Collaborative Research: ABI Development: Building a Pipeline for Validation, Curation and Archiving of Integrative/Hybrid Models
National Science Foundation
Grant: 2129634
BBSRC-NSF/BIO: From atoms to molecules to cells - Multi-scale tools and infrastructure for visualization of annotated 3D structure data
National Institutes of Health
Grant: 5R01GM083960-04
IMP: Software for Hybrid Determination of Macromolecular Assembly Structures
National Science Foundation
Grant: 2321666
PDB Management by The Research Collaboratory for Structural Bioinformatics
National Science Foundation
Grant: 2112967
Collaborative Research: Creating mechanisms to make integrative structures of large macromolecular assemblies available from the Protein Data Bank
National Science Foundation
Grant: 1756250
Collaborative Research: ABI Development: Building a Pipeline for Validation, Curation and Archiving of Integrative/Hybrid Models
National Institutes of Health
Grant: 3P41GM109824-09S1
Equipment supplement for NCDIR
National Cancer Institute
NCI NIH HHS
Biotechnology and Biological Sciences Research Council
FWCI
25.15
Citation Percentile
1.0%
Influential Citations
15
Citation Trend
Fields of Study
MeSH Terms
Keywords
Sustainable Development Goals
An in silico bioactivity screening of Petasites hybridus oil extracted by hydrodistillation from leaves
An in silico bioactivity screening of Petasites hybridus oil extracted by hydrodistillation from leaves