Rational Design of Proteolytically Stable, Cell-Permeable Peptide-Based Selective Mcl-1 Inhibitors
Open accessAbstract
Direct chemical modifications provide a simple and effective means to "translate" bioactive helical peptides into potential therapeutics targeting intracellular protein-protein interactions. We previously showed that distance-matching bisaryl cross-linkers can reinforce peptide helices containing two cysteines at the i and i+7 positions and confer cell permeability to the cross-linked peptides. Here we report the first crystal structure of a biphenyl-cross-linked Noxa peptide in complex with its target Mcl-1 at 2.0 Å resolution. Guided by this structure, we remodeled the surface of this cross-linked peptide through side-chain substitution and N-methylation and obtained a pair of cross-linked peptides with substantially increased helicity, cell permeability, proteolytic stability, and cell-killing activity in Mcl-1-overexpressing U937 cells.
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.
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
The landscape of somatic copy-number alteration across human cancers
Beroukhim, R., Mermel, C. H., Porter, D., Wei, G., Raychaudhuri, S., Donovan, J., Barretina, J., Boehm, J. S., Dobson, J., Urashima, M., et al. (2010) · Nature · doi:10.1038/nature08822 · Cited by 4,017 · see citing works
An inhibitor of Bcl-2 family proteins induces regression of solid tumours
Oltersdorf, T., Elmore, S. W., Shoemaker, A. R., Armstrong, R. C., Augeri, D. J., Belli, B., Bruncko, M., Deckwerth, T. L., Dinges, J., Hajduk, P. J., et al. (2005) · Nature · doi:10.1038/nature03579 · Cited by 3,407 · see citing works
Bcl-2 gene promotes haemopoietic cell survival and cooperates with c-myc to immortalize pre-B cells
Vaux, D., Cory, S., & Adams, J. (1988) · Nature · doi:10.1038/335440a0 · Cited by 3,355 · see citing works
Chen, L., Willis, S. N., Wei, A., Smith, B. J., Fletcher, J. I., Hinds, M. G., Colman, P. M., Day, C. L., Adams, J. M., & Huang, D. C. S. (2005) · Molecular Cell · doi:10.1016/j.molcel.2004.12.030 · Cited by 1,816 · see citing works
Activation of Apoptosis in Vivo by a Hydrocarbon-Stapled BH3 Helix
Walensky, L. D., Kung, A. L., Escher, I., Malia, T. J., Barbuto, S., Wright, R. D., Wagner, G., Verdine, G. L., & Korsmeyer, S. J. (2004) · Science · doi:10.1126/science.1099191 · Cited by 1,349 · see citing works
van Delft, M. F., Wei, A. H., Mason, K. D., Vandenberg, C. J., Chen, L., Czabotar, P. E., Willis, S. N., Scott, C. L., Day, C. L., Cory, S., et al. (2006) · Cancer Cell · doi:10.1016/j.ccr.2006.08.027 · Cited by 1,237 · see citing works
A Helix Propensity Scale Based on Experimental Studies of Peptides and Proteins
Pace, C. N., & Scholtz, J. M. (1998) · Biophysical Journal · doi:10.1016/s0006-3495(98)77529-0 · Cited by 1,074 · see citing works
Sensitivity to antitubulin chemotherapeutics is regulated by MCL1 and FBW7
Wertz, I. E., Kusam, S., Lam, C., Okamoto, T., Sandoval, W. N., Anderson, D. J., Helgason, E., Ernst, J. A., Eby, M., Liu, J., et al. (2011) · Nature · doi:10.1038/nature09779 · Cited by 784 · see citing works
Life in the balance: how BH3-only proteins induce apoptosis
Willis, S. N., & Adams, J. M. (2005) · Current Opinion in Cell Biology · doi:10.1016/j.ceb.2005.10.001 · Cited by 743 · see citing works
SCFFBW7 regulates cellular apoptosis by targeting MCL1 for ubiquitylation and destruction
Inuzuka, H., Shaik, S., Onoyama, I., Gao, D., Tseng, A., Maser, R. S., Zhai, B., Wan, L., Gutiérrez, A., Lau, A. W., et al. (2011) · Nature · doi:10.1038/nature09732 · Cited by 635 · see citing works
BCL-2 family antagonists for cancer therapy
Lessène, G., Czabotar, P. E., & Colman, P. M. (2008) · Nature Reviews Drug Discovery · doi:10.1038/nrd2658 · Cited by 623 · see citing works
Structural insights into the degradation of Mcl-1 induced by BH3 domains
Czabotar, P. E., Lee, E. F., van Delft, M. F., Day, C. L., Smith, B. J., Huang, D. C. S., Fairlie, W. D., Hinds, M. G., & Colman, P. M. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0701297104 · Cited by 449 · see citing works
The MCL-1 BH3 helix is an exclusive MCL-1 inhibitor and apoptosis sensitizer
Stewart, M. L., Fire, E., Keating, A. E., & Walensky, L. D. (2010) · Nature Chemical Biology · doi:10.1038/nchembio.391 · Cited by 418 · see citing works
Expression of bcl-xL can confer a multidrug resistance phenotype
Minn, A., Rudin, C., Boise, L., & Thompson, C. (1995) · Blood · doi:10.1182/blood.v86.5.1903.bloodjournal8651903 · Cited by 415 · see citing works
On-resin N-methylation of cyclic peptides for discovery of orally bioavailable scaffolds
White, T. R., Renzelman, C. M., Rand, A. C., Rezai, T., McEwen, C. M., Gelev, V., Turner, R. A., Linington, R. G., Leung, S. S. F., Kalgutkar, A. S. S., et al. (2011) · Nature Chemical Biology · doi:10.1038/nchembio.664 · Cited by 391 · see citing works
A Stapled BID BH3 Helix Directly Binds and Activates BAX
Walensky, L. D., Pitter, K., Morash, J., Oh, K. J., Barbuto, S., Fisher, J., Smith, E., Verdine, G. L., & Korsmeyer, S. J. (2006) · Molecular Cell · doi:10.1016/j.molcel.2006.08.020 · Cited by 383 · see citing works
Improving Oral Bioavailability of Peptides by Multiple N‐Methylation: Somatostatin Analogues
Biron, E., Chatterjee, J., Ovadia, O., Langenegger, D., Brueggen, J., Hoyer, D., Schmid, H. A., Jelinek, R., Gilon, C., Hoffman, A., et al. (2008) · Angewandte Chemie International Edition · doi:10.1002/anie.200705797 · Cited by 374 · see citing works
Acquired resistance to ABT-737 in lymphoma cells that up-regulate MCL-1 and BFL-1
Yecies, D. W., Carlson, N. E., Deng, J., & Letai, A. G. (2010) · Blood · doi:10.1182/blood-2009-07-233304 · Cited by 362 · see citing works
Verdine, G. L., & Walensky, L. D. (2007) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-07-2184 · Cited by 362 · see citing works
Mimicking the BH3 domain to kill cancer cells
Chonghaile, T. N., & Letai, A. G. (2008) · Oncogene · doi:10.1038/onc.2009.52 · Cited by 268 · see citing works
Structure of the Stapled p53 Peptide Bound to Mdm2
Baek, S., Kutchukian, P. S., Verdine, G. L., Huber, R., Holak, T. A., Lee, K. W., & Popowicz, G. M. (2012) · Journal of the American Chemical Society · doi:10.1021/ja2090367 · Cited by 259 · see citing works
Development of a Potent Bcl-x L Antagonist Based on α-Helix Mimicry
Kutzki, O., Park, H. S., Ernst, J. T., Orner, B. P., Yin, H. H., & Hamilton, A. D. (2002) · Journal of the American Chemical Society · doi:10.1021/ja026861k · Cited by 253 · see citing works
Lin, X., Morgan-Lappe, S. E., Huang, X., Li, L., Zakula, D., Vernetti, L. A., Fesik, S. W., & Shen, Y. (2006) · Oncogene · doi:10.1038/sj.onc.1210166 · Cited by 245 · see citing works
Terphenyl-Based Bak BH3 α-Helical Proteomimetics as Low-Molecular-Weight Antagonists of Bcl-x L
Yin, H. H., Lee, G.-I., Sedey, K. A., Kutzki, O., Park, H. S., Orner, B. P., Ernst, J. T., Wang, H., Sebti, S. M., & Hamilton, A. D. (2005) · Journal of the American Chemical Society · doi:10.1021/ja050122x · Cited by 199 · see citing works
Self-citationIn Silico Prediction of Membrane Permeability from Calculated Molecular Parameters
Refsgaard, H. H. F., Jensen, B. F., Brockhoff, P. B., Padkjær, S. B., Guldbrandt, M., & Christensen, M. S. (2005) · Journal of Medicinal Chemistry · doi:10.1021/jm049661n · Cited by 189 · see citing works
Wang, D., Liao, W., & Arora, P. S. (2005) · Angewandte Chemie International Edition · doi:10.1002/anie.200501603 · Cited by 156 · see citing works
Sequence‐Based Design of α/β‐Peptide Foldamers That Mimic BH3 Domains
Horne, W. S., Boersma, M., Windsor, M. A., & Gellman, S. H. (2008) · Angewandte Chemie International Edition · doi:10.1002/anie.200705315 · Cited by 151 · see citing works
Bcl-2 Family Proteins: Strategies for Overcoming Chemoresistance in Cancer
Reed, J. C. (1997) · Advances in pharmacology · doi:10.1016/s1054-3589(08)61070-4 · Cited by 123 · see citing works
Chapter 22 Synthesis and Biophysical Characterization of Stabilized α‐Helices of BCL‐2 Domains
Bird, G. H., Bernal, F., Pitter, K. L., & Walensky, L. D. (2008) · Methods in enzymology on CD-ROM/Methods in enzymology · doi:10.1016/s0076-6879(08)01622-4 · Cited by 95 · see citing works
Muppidi, A., Wang, Z., Li, X., Chen, J., & Lin, Q. (2011) · Chemical Communications · doi:10.1039/c1cc13320a · Cited by 87 · see citing works
Self-citationMadden, M. M., Vera, C. I. R., Song, W., & Lin, Q. (2009) · Chemical Communications · doi:10.1039/b912094g · Cited by 77 · see citing works
Self-citationTahir, S. K., Wass, J. A. H., Joseph, M. K., Devanarayan, V., Hessler, P., Zhang, H., Elmore, S. W., Kroeger, P. E., Tse, C., Rosenberg, S. H., et al. (2010) · Molecular Cancer Therapeutics · doi:10.1158/1535-7163.mct-09-0651 · Cited by 73 · see citing works
The effect of N‐methylation on helical peptides
Chang, C., & Zehfus, M. H. (1996) · Biopolymers · doi:10.1002/(sici)1097-0282(1996)40:6 · Cited by 11 · see citing works
The effect of N-methylation on helical peptides.
Chang, C., & Zehfus, M. H. (1996) · PubMed · doi:10.1002/(sici)1097-0282(1996)40:6%3c609::aid-bip2%3e3.0.co;2-# · Cited by 10 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Therapeutic Peptides: Current Applications and Future Directions
Wang, L., Wang, N., Zhang, W., Cheng, X., Yan, Z., Shao, G., Wang, X., Wang, R., & Fu, C. (2022) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-022-00904-4 · Cited by 2,131 · see citing works
From basic apoptosis discoveries to advanced selective BCL-2 family inhibitors
Ashkenazi, A., Fairbrother, W. J., Leverson, J. D., & Souers, A. J. (2017) · Nature Reviews Drug Discovery · doi:10.1038/nrd.2016.253 · Cited by 903 · see citing works
Inhibition of α-helix-mediated protein–protein interactions using designed molecules
Azzarito, V., Long, K., Murphy, N. S., & Wilson, A. J. (2013) · Nature Chemistry · doi:10.1038/nchem.1568 · Cited by 727 · see citing works
Modulators of Protein–Protein Interactions
Milroy, L.-G., Grossmann, T. N., Hennig, S., Brunsveld, L., & Ottmann, C. (2014) · Chemical Reviews · doi:10.1021/cr400698c · Cited by 497 · see citing works
Leverson, J. D., Zhang, H., Chen, J., Tahir, S. K., Phillips, D. C., Xue, J., Nimmer, P., Jin, S., Smith, M., Xiao, Y., et al. (2015) · Cell Death & Disease · doi:10.1038/cddis.2014.561 · Cited by 440 · see citing works
Oncogenic protein interfaces: small molecules, big challenges
Nero, T. L., Morton, C. J., Holien, J. K., Wielens, J., & Parker, M. W. (2014) · Nature Reviews Cancer · doi:10.1038/nrc3690 · Cited by 312 · see citing works
Inhibition of Mcl-1 through covalent modification of a noncatalytic lysine side chain
Akçay, G., Belmonte, M. A., Aquila, B., Chuaqui, C., Hird, A. W., Lamb, M. L., Rawlins, P. B., Su, N., Tentarelli, S., Grimster, N. P., et al. (2016) · Nature Chemical Biology · doi:10.1038/nchembio.2174 · Cited by 207 · see citing works
Design of potent and proteolytically stable oxyntomodulin analogs
Muppidi, A., Zou, H., Yang, P. Y., Chao, E., Sherwood, L., Nunez, V., Woods, A. K., Schultz, P. G., Lin, Q., & Shen, W. (2016) · ACS Chemical Biology · doi:10.1021/acschembio.5b00787 · Cited by 44 · see citing works
Self-citation
- Authors
- Muppidi, A., Doi, K., Edwardraja, S., Drake, E. J., Gulick, A. M., Wang, H.-G., & Lin, Q.
- Affiliations
- University at Buffalo, State University of New York (US)
- Pennsylvania State University (US)
- Corresponding author
- Lin, Qing
- Venue
- Journal of the American Chemical Society
- Publisher
- American Chemical Society (ACS)
- Published
- 2012-09-04
- Volume
- 134
- Issue
- 36
- Pages
- 14734-14737
- ISSN
- 0002-7863 (ISSN-L)
- 1520-5126
- PMC
- PMC3472523
- OpenAlex
- W2069526261
- Cited by
- 156
- References
- 34
- Citations by year
- 2026: 5 · 2025: 2 · 2024: 1 · 2023: 3 · 2022: 6 · 2021: 15 · 2020: 12 · 2019: 16 · 2018: 16 · 2017: 12 · 2016: 18 · 2015: 20 · 2014: 21 · 2013: 7 · 2012: 2
- FWCI
- 6.68
- Type
- journal article
- Language
- en
- Open access
- green
- europepmc.org
- Locations
- Journal of the American Chemical Society (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- John R. Oishei Foundation
- Elsa U. Pardee Foundation
- National Cancer Institute (CA-82197, R01CA082197)
- National Institute of General Medical Sciences (R01GM068440, GM-068440)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chemical Synthesis and Analysis
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Cell death mechanisms and regulation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Keywords
- Mcl-1 inhibitors, membrane permeability, proteolytic stability, protein-protein interaction, crystal structure, side-chain substitution, N-methylation, apoptosis, U937 cells
- MeSH terms
- Cell Membrane Permeability, Humans, Models, Molecular, Peptides, Molecular Structure, Proto-Oncogene Proteins c-bcl-2, U937 Cells, Myeloid Cell Leukemia Sequence 1 Protein
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