Hitting on the move: targeting intrinsically disordered protein states of the MDM2-p53 interaction
Open accessAbstract
Intrinsically disordered proteins are an emerging class of proteins without a folded structure and currently disorder-based drug targeting remains a challenge. p53 is the principal regulator of cell division and growth whereas MDM2 consists its main negative regulator. The MDM2-p53 recognition is a dynamic and multistage process that amongst other, employs the dissociation of a transient α-helical N-terminal ''lid'' segment of MDM2 from the proximity of the p53-complementary interface. Several small molecule inhibitors have been reported to inhibit the formation of the p53-MDM2 complex with the vast majority mimicking the p53 residues Phe19, Trp23 and Leu26. Recently, we have described the transit from the 3-point to 4-point pharmacophore model stabilizing this intrinsically disordered N-terminus by increasing the binding affinity by a factor of 3. Therefore, we performed a thorough SAR analysis, including chiral separation of key compound which was evaluated by FP and 2D NMR. Finally, p53-specific anti-cancer activity towards p53-wild-type cancer cells was observed for several representative compounds.
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
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.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Changing the formyl group to methyl or acetyl causes loss of MDM2 binding affinity.
“The change of formyl group to methyl or acetyl, causes the loss of the binding affinity[38].”
From Development of MDM2 degraders based on ligands derived from Ugi reactions: Lessons and discoveries (2021) · cites this paper as [38]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
p53, the cellular gatekeeper for growth and division
Levine, A. J. (1997) · Cell · doi:10.1016/s0092-8674(00)81871-1 · Cited by 7,693 · see citing works
Vogelstein, B., Lane, D., & Levine, A. J. (2000) · Nature · doi:10.1038/35042675 · Cited by 6,607 · see citing works
Lane, D. P. (1992) · Nature · doi:10.1038/358015a0 · Cited by 5,138 · see citing works
Gradient-tailored excitation for single-quantum NMR spectroscopy of aqueous solutions
Piotto, M., Saudek, V., & Sklenář, V. (1992) · Journal of Biomolecular NMR · doi:10.1007/bf02192855 · Cited by 3,720 · see citing works
Innovation in the pharmaceutical industry: New estimates of R&D costs
DiMasi, J. A., Grabowski, H. G., & Hansen, R. W. (2016) · Journal of Health Economics · doi:10.1016/j.jhealeco.2016.01.012 · Cited by 3,359 · see citing works
Structure of the MDM2 Oncoprotein Bound to the p53 Tumor Suppressor Transactivation Domain
Kussie, P. H., Gorina, S., Marechal, V., Elenbaas, B., Moreau, J., Levine, A. J., & Pavletich, N. P. (1996) · Science · doi:10.1126/science.274.5289.948 · Cited by 2,206 · see citing works
Discovering High-Affinity Ligands for Proteins: SAR by NMR
Shuker, S. B., Hajduk, P. J., Meadows, R. P., & Fesik, S. W. (1996) · Science · doi:10.1126/science.274.5292.1531 · Cited by 2,045 · see citing works
A Medicinal Chemist’s Guide to Molecular Interactions
Bissantz, C., Kuhn, B., & Ståhl, M. (2010) · Journal of Medicinal Chemistry · doi:10.1021/jm100112j · Cited by 1,773 · see citing works
Using chemical shift perturbation to characterise ligand binding
Williamson, M. P. (2013) · Progress in Nuclear Magnetic Resonance Spectroscopy · doi:10.1016/j.pnmrs.2013.02.001 · Cited by 1,436 · see citing works
Principles and Applications of Halogen Bonding in Medicinal Chemistry and Chemical Biology
Wilcken, R., Zimmermann, M. O., Lange, A., Joerger, A. C., & Boeckler, F. M. (2012) · Journal of Medicinal Chemistry · doi:10.1021/jm3012068 · Cited by 1,364 · see citing works
Ding, K., Lu, Y., Nikolovska-Coleska, Z., Wang, G., Qiu, S., Shangary, S., Gao, W., Qin, D., Stuckey, J., Krajewski, K., et al. (2006) · Journal of Medicinal Chemistry · doi:10.1021/jm051122a · Cited by 702 · see citing works
Mapping of the p53 and mdm-2 Interaction Domains
Chen, J., Maréchal, V., & Levine, A. J. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.7.4107 · Cited by 689 · see citing works
Mori, S., Abeygunawardana, C., Johnson, M., et al. (1995) · Journal of Magnetic Resonance Series B · doi:10.1006/jmrb.1995.1109 · Cited by 644 · see citing works
Intrinsically disordered proteins: a 10-year recap
Tompa, P. (2012) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2012.08.004 · Cited by 624 · see citing works
Functions of the MDM2 oncoprotein
Freedman, D. A., Wu, L., & Levine, A. J. (1999) · Cellular and Molecular Life Sciences · doi:10.1007/s000180050273 · Cited by 573 · see citing works
Unusual biophysics of intrinsically disordered proteins.
Uversky, V. (2013) · Biochimica et Biophysica Acta · doi:10.1016/j.bbapap.2012.12.008 · Cited by 536 · see citing works
A decade and a half of protein intrinsic disorder: Biology still waits for physics
Uversky, V. (2013) · Protein Science · doi:10.1002/pro.2261 · Cited by 478 · see citing works
NMR methods for the determination of protein–ligand dissociation constants
FIELDING, L. (2007) · Progress in Nuclear Magnetic Resonance Spectroscopy · doi:10.1016/j.pnmrs.2007.04.001 · Cited by 405 · see citing works
Local Structural Elements in the Mostly Unstructured Transcriptional Activation Domain of Human p53
Lee, H., Mok, K. H., Muhandiram, R., Park, K.-H., Suk, J.-E., Kim, D., Chang, J., Sung, Y. C., Choi, K. Y., & Han, K. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.m003107200 · Cited by 329 · see citing works
Chalcone Derivatives Antagonize Interactions between the Human Oncoprotein MDM2 and p53
Stoll, R., Renner, C., Hansen, S., Palme, S., Klein, C., Belling, A., Żesławski, W., Kamionka, M., Rehm, T., Mühlhahn, P., et al. (2000) · Biochemistry · doi:10.1021/bi000930v · Cited by 275 · see citing works
Self-citationp21(WAF1) Mediates Cell-Cycle Inhibition, Relevant to Cancer Suppression and Therapy
El‐Deiry, W. S. (2016) · Cancer Research · doi:10.1158/0008-5472.can-16-2055 · Cited by 258 · see citing works
Mapping of the p53 and mdm-2 Interaction Domains
Chen, J., Maréchal, V., & Levine, A. J. (1993) · Molecular and Cellular Biology · doi:10.1128/mcb.13.7.4107-4114.1993 · Cited by 247 · see citing works
Picksley, S. M., Vojtĕsek, B., Sparks, A., & Lane, D. P. (1994) · PubMed · Cited by 238 · see citing works
Popowicz, G. M., Czarna, A., Wolf, S., Wang, K., Wang, W., Dömling, A. S. S., & Holak, T. A. (2010) · Cell Cycle · doi:10.4161/cc.9.6.10956 · Cited by 232 · see citing works
Self-citationCyclic Guanidine Organic Catalysts: What Is Magic About Triazabicyclodecene?
Kiesewetter, M. K., Scholten, M. D., Kirn, N., Weber, R. L., Hedrick, J. L., & Waymouth, R. M. (2009) · The Journal of Organic Chemistry · doi:10.1021/jo902369g · Cited by 213 · see citing works
Transient Pockets on Protein Surfaces Involved in Protein−Protein Interaction
Eyrisch, S., & Helms, V. (2007) · Journal of Medicinal Chemistry · doi:10.1021/jm070095g · Cited by 212 · see citing works
Targeting the p53–MDM2 interaction to treat cancer
Klein, C., & Vassilev, L. T. (2004) · British Journal of Cancer · doi:10.1038/sj.bjc.6602164 · Cited by 204 · see citing works
Structure of the human Mdmx protein bound to the p53 tumor suppressor transactivation domain
Popowicz, G. M., Czarna, A., & Holak, T. A. (2008) · Cell Cycle · doi:10.4161/cc.6365 · Cited by 195 · see citing works
Self-citationThe way to NMR structures of proteins.
Wüthrich, K. (2001) · Nature Structural Biology · doi:10.1038/nsb1101-923 · Cited by 191 · see citing works
Tóth, G., Gardai, S. J., Zago, W., Bertoncini, C. W., Cremades, N., Roy, S. L., Tambe, M. A., Rochet, J.-C., Galvagnion, C., Skibinski, G., et al. (2014) · PLoS ONE · doi:10.1371/journal.pone.0087133 · Cited by 151 · see citing works
Uhrı́nová, S., Uhrı́n, D., Powers, H., Watt, K., Zheleva, D. I., Fischer, P. M., McInnes, C., & Barlow, P. N. (2005) · Journal of Molecular Biology · doi:10.1016/j.jmb.2005.05.010 · Cited by 141 · see citing works
Czarna, A., Beck, B., Srivastava, S., Popowicz, G. M., Wolf, S., Huang, Y., Biśta, M., Holak, T. A., & Dömling, A. S. S. (2010) · Angewandte Chemie International Edition · doi:10.1002/anie.201001343 · Cited by 134 · see citing works
Self-citationThe α-helical FXXΦΦ motif in p53: TAF interaction and discrimination by MDM2
Uesugi, M., & Verdine, G. L. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.26.14801 · Cited by 133 · see citing works
Molecular Basis for the Inhibition of p53 by Mdmx
Popowicz, G. M., Czarna, A., Rothweiler, U., Szwagierczak, A., Krajewski, M., Weber, L., & Holak, T. A. (2007) · Cell Cycle · doi:10.4161/cc.6.19.4740 · Cited by 131 · see citing works
Self-citationSmall molecular weight protein–protein interaction antagonists—an insurmountable challenge?
Dömling, A. S. S. (2008) · Current Opinion in Chemical Biology · doi:10.1016/j.cbpa.2008.04.603 · Cited by 128 · see citing works
Self-citationStructure-based Inhibitor Design for the Intrinsically Disordered Protein c-Myc
Chen, Y., Niu, X., Jin, F., Liu, Z., Jin, C., & Lai, L. (2016) · Scientific Reports · doi:10.1038/srep22298 · Cited by 115 · see citing works
Targeting Intrinsically Disordered Transcription Factors: Changing the Paradigm
Tsafou, K., Tiwari, P. B., Forman-Kay, J. D., Metallo, S. J., & Toretsky, J. A. (2018) · Journal of Molecular Biology · doi:10.1016/j.jmb.2018.04.008 · Cited by 110 · see citing works
Short and Diverse Route Toward Complex Natural Product-Like Macrocycles
Beck, B., Larbig, G., Mejat, B., et al. (2003) · Organic Letters · doi:10.1021/ol034077e · Cited by 109 · see citing works
Self-citationBarile, E., & Pellecchia, M. (2014) · Chemical Reviews · doi:10.1021/cr500043b · Cited by 109 · see citing works
Enabling Large-Scale Design, Synthesis and Validation of Small Molecule Protein-Protein Antagonists
Koes, D. R., Khoury, K., Huang, Y., Wang, W., Biśta, M., Popowicz, G. M., Wolf, S., Holak, T. A., Dömling, A. S. S., & Camacho, C. J. (2012) · PLoS ONE · doi:10.1371/journal.pone.0032839 · Cited by 104 · see citing works
Self-citationEstrada‐Ortiz, N., Neochoritis, C. G., & Dömling, A. S. S. (2015) · ChemMedChem · doi:10.1002/cmdc.201500487 · Cited by 100 · see citing works
Self-citationHigh affinity interaction of the p53 peptide-analogue with human Mdm2 and Mdmx
Czarna, A., Popowicz, G. M., Pęcak, A., Wolf, S., Dubin, G., & Holak, T. A. (2009) · Cell Cycle · doi:10.4161/cc.8.8.8185 · Cited by 99 · see citing works
Self-citationTargeting intrinsically disordered proteins in rational drug discovery
Ambadipudi, S., & Zweckstetter, M. (2015) · Expert Opinion on Drug Discovery · doi:10.1517/17460441.2016.1107041 · Cited by 97 · see citing works
Flexible lid to the p53-binding domain of human Mdm2: Implications for p53 regulation
McCoy, M. A., Gesell, J. J., Senior, M. M., & Wyss, D. F. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0334477100 · Cited by 95 · see citing works
Quantitative Lid Dynamics of MDM2 Reveals Differential Ligand Binding Modes of the p53-Binding Cleft
Showalter, S. A., Bruschweiler‐Li, L., Johnson, E., Zhang, F., & Brüschweiler, R. (2008) · Journal of the American Chemical Society · doi:10.1021/ja800201j · Cited by 91 · see citing works
Efficient Isocyanide-less Isocyanide-Based Multicomponent Reactions
Neochoritis, C. G., Stotani, S., Mishra, B. A., et al. (2015) · Organic Letters · doi:10.1021/acs.orglett.5b00759 · Cited by 73 · see citing works
Self-citationFuret, P., Chêne, P., Pover, A. D., Stachyra, T., Lisztwan, J. H., Kallen, J. A., & Masuya, K. (2012) · Bioorganic & Medicinal Chemistry Letters · doi:10.1016/j.bmcl.2012.03.083 · Cited by 73 · see citing works
Ordering of the N-Terminus of Human MDM2 by Small Molecule Inhibitors
Michelsen, K., Jordan, J. B., Lewis, J. K., Long, A. M., Yang, E., Rew, Y., Zhou, J., Yakowec, P. S., Schnier, P. D., Huang, X. Y., et al. (2012) · Journal of the American Chemical Society · doi:10.1021/ja305839b · Cited by 71 · see citing works
Exploiting Transient Protein States for the Design of Small-Molecule Stabilizers of Mutant p53
Joerger, A. C., Bauer, M. R., Wilcken, R., Baud, M. G. J., Harbrecht, H., Exner, T. E., Boeckler, F. M., Spencer, J., & Fersht, A. R. (2015) · Structure · doi:10.1016/j.str.2015.10.016 · Cited by 62 · see citing works
Transient Protein States in Designing Inhibitors of the MDM2-p53 Interaction
Biśta, M., Wolf, S., Khoury, K., Kowalska, K., Huang, Y., Wrona, E., Arciniega, M., Popowicz, G. M., Holak, T. A., & Dömling, A. S. S. (2013) · Structure · doi:10.1016/j.str.2013.09.006 · Cited by 56 · see citing works
Self-citationZhan, C., Varney, K. M., Yuan, W., Zhao, L., & Lu, W. (2012) · Journal of the American Chemical Society · doi:10.1021/ja301255n · Cited by 49 · see citing works
2,3′-Bis(1′H-indole) heterocycles: New p53/MDM2/MDMX antagonists
Neochoritis, C. G., Wang, K., Estrada‐Ortiz, N., Herdtweck, E., Kubica, K., Twarda‐Clapa, A., Żak, K. M., Holak, T. A., & Dömling, A. S. S. (2015) · Bioorganic & Medicinal Chemistry Letters · doi:10.1016/j.bmcl.2015.11.019 · Cited by 46 · see citing works
Self-citationA therapeutic patent overview of MDM2/X-targeted therapies (2014–2018)
Skalniak, Ł., Surmiak, E., & Holak, T. A. (2019) · Expert Opinion on Therapeutic Patents · doi:10.1080/13543776.2019.1582645 · Cited by 45 · see citing works
Self-citationHuang, Y., Wolf, S., Beck, B., Köhler, L.-M., Khoury, K., Popowicz, G. M., Goda, S. K., Subklewe, M. S., Twarda‐Clapa, A., Holak, T. A., et al. (2014) · ACS Chemical Biology · doi:10.1021/cb400728e · Cited by 42 · see citing works
Self-citationModulation of p53 binding to MDM2: computational studies reveal important roles of Tyr100
Dastidar, S. G., Lane, D. P., & Verma, C. S. (2009) · BMC Bioinformatics · doi:10.1186/1471-2105-10-s15-s6 · Cited by 40 · see citing works
Leuckart–Wallach Route Toward Isocyanides and Some Applications
Neochoritis, C. G., Zarganes‐Tzitzikas, T., Stotani, S., et al. (2015) · ACS Combinatorial Science · doi:10.1021/acscombsci.5b00066 · Cited by 38 · see citing works
Self-citationKoes, D. R., Dömling, A. S. S., & Camacho, C. J. (2017) · Protein Science · doi:10.1002/pro.3303 · Cited by 35 · see citing works
Self-citationSurmiak, E., Neochoritis, C. G., Musielak, B., Twarda‐Clapa, A., Kurpiewska, K., Dubin, G., Camacho, C. J., Holak, T. A., & Dömling, A. S. S. (2016) · European Journal of Medicinal Chemistry · doi:10.1016/j.ejmech.2016.11.029 · Cited by 34 · see citing works
Self-citationArtificial Macrocycles as Potent p53–MDM2 Inhibitors
Estrada‐Ortiz, N., Neochoritis, C. G., Twarda‐Clapa, A., Musielak, B., Holak, T. A., & Dömling, A. S. S. (2017) · ACS Medicinal Chemistry Letters · doi:10.1021/acsmedchemlett.7b00219 · Cited by 32 · see citing works
Self-citationTwarda‐Clapa, A., Krzanik, S., Kubica, K., Guzik, K., Łabuzek, B., Neochoritis, C. G., Khoury, K., Kowalska, K., Czub, M., Dubin, G., et al. (2017) · Journal of Medicinal Chemistry · doi:10.1021/acs.jmedchem.7b00104 · Cited by 31 · see citing works
Self-citationScaffold hopping via ANCHOR.QUERY: β-lactams as potent p53-MDM2 antagonists
Shaabani, S., Neochoritis, C. G., Twarda‐Clapa, A., et al. (2017) · MedChemComm · doi:10.1039/c7md00058h · Cited by 25 · see citing works
Self-citationNeochoritis, C. G., Estrada‐Ortiz, N., Khoury, K., & Dömling, A. S. S. (2014) · Annual reports in medicinal chemistry · doi:10.1016/b978-0-12-800167-7.00012-2 · Cited by 16 · see citing works
Self-citationSkalniak, Ł., Twarda‐Clapa, A., Neochoritis, C. G., Surmiak, E., Machula, M., Wiśniewska, A., Łabuzek, B., Ali, A. M., Krzanik, S., Dubin, G., et al. (2019) · FEBS Journal · doi:10.1111/febs.14774 · Cited by 16 · see citing works
Self-citationIntrinsically Disordered Proteins as Drug Targets
Sánchez-Martínez, M. (2017) · MOJ Proteomics & Bioinformatics · doi:10.15406/mojpb.2017.05.00157 · Cited by 8 · see citing works
Hitting a Moving Target: Targeting Transient Protein States
Bauer, M. R., & Boeckler, F. M. (2013) · Structure · doi:10.1016/j.str.2013.11.003 · Cited by 6 · see citing works
The negative relativistic toda hierarchy and rational poisson brackets
da Costa, J. M. N., & Damianou, P. A. (2004) · Qualitative Theory of Dynamical Systems · doi:10.1007/bf02968133 · Cited by 1 · see citing works
Flagged first, then by citations
Research works printed but not linked: 1
- [42]Estrada-Ortiz N, Neochoritis CG, Twarda-Clapa A, Musielak B, Holak TA, Dömling A, Artificial macrocycles as potent p53-MDM2 inhibitors, ACS Med. Chem. Lett 8 (2017) 1025– 1030, 10.1021/acsmedchemlett.7b00219. 29057045 PMC5641952 · DOI
Cited by
Sorted by citations
Development of MDM2 degraders based on ligands derived from Ugi reactions: Lessons and discoveries
Wang, B., Liu, J., Tandon, I., Wu, S., Teng, P., Liao, J., & Tang, W. (2021) · European Journal of Medicinal Chemistry · doi:10.1016/j.ejmech.2021.113425 · Cited by 67 · see citing works
- Authors
- Neochoritis, C. G., Atmaj, J., Twarda-Clapa, A., Surmiak, E., Skalniak, L., Köhler, L.-M., Muszak, D., Kurpiewska, K., Kalinowska-Tłuścik, J., Beck, B., Holak, T. A., & Dömling, A.
- Affiliations
- University of Groningen (NL)
- Jagiellonian University (PL)
- Helmholtz Munich (DE)
- Corresponding author
- Dömling, Alexander
- ORCID
- Venue
- European Journal of Medicinal Chemistry
- Publisher
- Elsevier BV
- Published
- 2019-11
- Volume
- 182
- Pages
- 111588
- ISSN
- 0223-5234 (ISSN-L)
- PMC
- PMC7008132
- OpenAlex
- W2964867254
- Cited by
- 12
- References
- 66
- Citations by year
- 2025: 3 · 2024: 1 · 2022: 1 · 2021: 3 · 2020: 3 · 2019: 1
- FWCI
- 0.94
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- European Journal of Medicinal Chemistry (publishedVersion, other-oa)
- PubMed (publishedVersion)
- University of Groningen research database (University of Groningen / Centre for Information Technology) (publishedVersion, other-oa)
- PubMed Central (acceptedVersion)
- Jagiellonian University Repository (Jagiellonian University) (submittedVersion, cc-by-nc-nd)
- University of Groningen research database (University of Groningen / Centre for Information Technology) (submittedVersion, other-oa)
- Funders
- KWF Kankerbestrijding
- Hartstichting
- H2020 Marie Skłodowska-Curie Actions
- Narodowym Centrum Nauki
- Innovative Medicines Initiative
- Qatar National Research Fund
- Foundation for the National Institutes of Health
- Topics
- Health Sciences › Medicine › Oncology › Cancer-related Molecular Pathways
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Physical Sciences › Computer Science › Computational Theory and Mathematics › Computational Drug Discovery Methods
- Keywords
- p53-MDM2 interaction, intrinsically disordered proteins, p53, small molecule inhibitors, pharmacophore model, structure-activity relationship, enantiomer separation, anticancer activity, protein-protein binding
- MeSH terms
- Antineoplastic Agents, Benzylamines, Cyanides, Dose-Response Relationship, Drug, Drug Screening Assays, Antitumor, Formates, Humans, Indoles, Structure-Activity Relationship, Molecular Structure, Tumor Suppressor Protein p53, Cell Line, Tumor, Cell Proliferation, Proto-Oncogene Proteins c-mdm2, Intrinsically Disordered Proteins
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