The DOI matches its Crossref record; 14 of the 14 references it cites were found in a registry or an index.
PLIP 2025: introducing protein–protein interactions to the protein–ligand interaction profiler
Open accessAbstract
PLIP, the protein–ligand interaction profiler, analyses molecular interactions in protein structures. PLIP detects eight types of non-covalent interactions. Initially focused on small-molecule, DNA, and RNA interactions to a protein, the current release incorporates protein–protein interactions. We document the usefulness of this feature by comparing PLIP interactions of the cancer drug venetoclax with the native protein–protein interaction of Bcl-2 and BAX. PLIP reveals how the drug mimics the native interaction, as there is critical overlap in the interaction profiles. PLIP is available as a web server, source code with containers, and Jupyter notebook. The PLIP web server is online at https://plip-tool.biotec.tu-dresden.de.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Accurate structure prediction of biomolecular interactions with AlphaFold 3
Abramson, J., Adler, J., Dunger, J., Evans, R., Green, T., Pritzel, A., Ronneberger, O., Willmore, L., Ballard, A. J., Bambrick, J., et al. (2024) · Nature · doi:10.1038/s41586-024-07487-w · Cited by 15,861
PLIP: fully automated protein–ligand interaction profiler
Salentin, S., Schreiber, S., Haupt, V. J., Adasme, M. F., & Schroeder, M. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv315 · Cited by 2,340
Self-citationPLIP 2021: expanding the scope of the protein–ligand interaction profiler to DNA and RNA
Adasme, M. F., Linnemann, K. L., Bolz, S. N., Kaiser, F., Salentin, S., Haupt, V. J., & Schroeder, M. (2021) · Nucleic Acids Research · doi:10.1093/nar/gkab294 · Cited by 1,999
Self-citationThe worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data
Berman, H., Henrick, K., Nakamura, H., & Markley, J. L. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkl971 · Cited by 1,125
Generalized biomolecular modeling and design with RoseTTAFold All-Atom
Krishna, R., Wang, J., Ahern, W., Sturmfels, P., Venkatesh, P., Kalvet, I., Lee, G. R., Morey-Burrows, F. S., Anishchenko, I., Humphreys, I. R., et al. (2024) · Science · doi:10.1126/science.adl2528 · Cited by 978
Lu, H., Zhou, Q., He, J., Jiang, Z., Peng, C., Tong, R., & Shi, J. (2020) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-020-00315-3 · Cited by 891
Ku, B., Liang, C., Jung, J. U., & Oh, B.-H. (2011) · Cell Research · doi:10.1038/cr.2010.149 · Cited by 306
Structures of BCL-2 in complex with venetoclax reveal the molecular basis of resistance mutations
Birkinshaw, R. W., Gong, J.-N., Luo, C. S., Lio, D., White, C. A., Anderson, M. A., Blombery, P., Lessene, G., Majewski, I. J., Thijssen, R., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-10363-1 · Cited by 254
Drugs repurposed for COVID-19 by virtual screening of 6,218 drugs and cell-based assay
Jang, W. D., Jeon, S., Kim, S., & Lee, S. Y. (2021) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2024302118 · Cited by 171
Chen, J., Zeng, Q., Wang, W., Sun, H., & Hu, G. (2022) · Journal of Chemical Information and Modeling · doi:10.1021/acs.jcim.2c00961 · Cited by 142
Cited by
Bolz, S. N., Schake, P., Stitz, C., & Schroeder, M. (2025) · Expert Opinion on Drug Discovery · doi:10.1080/17460441.2025.2557599 · Cited by 7
Self-citation
Metadata
- Authors
- Schake, P., Bolz, S. N., Linnemann, K., & Schroeder, M.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2025-05-10
- Volume
- 53
- Issue
- W1
- Pages
- W463-W465
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W4410251219
- Cited by
- 322
- References
- 14
- FWCI
- 156.14
- Type
- journal article
- Language
- en
- Open access
- gold
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: PLIP 2025: introducing protein–protein interactions to the protein–ligand interaction profiler. https://app.cochat.ai/papers/10.1093/nar/gkaf361
- The paper
- Schake, P., Bolz, S. N., Linnemann, K., & Schroeder, M. (2025). PLIP 2025: introducing protein–protein interactions to the protein–ligand interaction profiler. Nucleic Acids Research. https://doi.org/10.1093/nar/gkaf361
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
