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Crystal Structure of the Human Ribosome in Complex with DENR-MCT-1.

Lomakin IB, Stolboushkina EA, Vaidya AT, Zhao C, Garber MB, Dmitriev SE, Steitz TA
Cell Rep 20 521-528 (2017)
Cited: 31 times
EuropePMC logo PMID: 28723557

Abstract

The repertoire of the density-regulated protein (DENR) and the malignant T cell-amplified sequence 1 (MCT-1/MCTS1) oncoprotein was recently expanded to include translational control of a specific set of cancer-related mRNAs. DENR and MCT-1 form the heterodimer, which binds to the ribosome and operates at both translation initiation and reinitiation steps, though by a mechanism that is yet unclear. Here, we determined the crystal structure of the human small ribosomal subunit in complex with DENR-MCT-1. The structure reveals the location of the DENR-MCT-1 dimer bound to the small ribosomal subunit. The binding site of the C-terminal domain of DENR on the ribosome has a striking similarity with those of canonical initiation factor 1 (eIF1), which controls the fidelity of translation initiation and scanning. Our findings elucidate how the DENR-MCT-1 dimer interacts with the ribosome and have functional implications for the mechanism of unconventional translation initiation and reinitiation.

Articles - 5vyc mentioned but not cited (4)

  1. Crystal Structure of the Human Ribosome in Complex with DENR-MCT-1. Lomakin IB, Stolboushkina EA, Vaidya AT, Zhao C, Garber MB, Dmitriev SE, Steitz TA. Cell Rep 20 521-528 (2017)
  2. DENR-MCTS1 heterodimerization and tRNA recruitment are required for translation reinitiation. Ahmed YL, Schleich S, Bohlen J, Mandel N, Simon B, Sinning I, Teleman AA. PLoS Biol 16 e2005160 (2018)
  3. Crystal structure of the DENR-MCT-1 complex revealed zinc-binding site essential for heterodimer formation. Lomakin IB, Dmitriev SE, Steitz TA. Proc Natl Acad Sci U S A 116 528-533 (2019)
  4. Simultaneous Bayesian inference of phylogeny and molecular coevolution. Meyer X, Dib L, Silvestro D, Salamin N. Proc Natl Acad Sci U S A 116 5027-5036 (2019)


Reviews citing this publication (4)

  1. Translation Termination and Ribosome Recycling in Eukaryotes. Hellen CUT. Cold Spring Harb Perspect Biol 10 a032656 (2018)
  2. Translation initiation by cap-dependent ribosome recruitment: Recent insights and open questions. Shirokikh NE, Preiss T. Wiley Interdiscip Rev RNA 9 e1473 (2018)
  3. Please do not recycle! Translation reinitiation in microbes and higher eukaryotes. Gunišová S, Hronová V, Mohammad MP, Hinnebusch AG, Valášek LS. FEMS Microbiol Rev 42 165-192 (2018)
  4. Extensions, Extra Factors, and Extreme Complexity: Ribosomal Structures Provide Insights into Eukaryotic Translation. Weisser M, Ban N. Cold Spring Harb Perspect Biol 11 a032367 (2019)

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  1. MCT-1/miR-34a/IL-6/IL-6R signaling axis promotes EMT progression, cancer stemness and M2 macrophage polarization in triple-negative breast cancer. Weng YS, Tseng HY, Chen YA, Shen PC, Al Haq AT, Chen LM, Tung YC, Hsu HL. Mol Cancer 18 42 (2019)
  2. Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. Kummer E, Leibundgut M, Rackham O, Lee RG, Boehringer D, Filipovska A, Ban N. Nature 560 263-267 (2018)
  3. Structural and Functional Insights into Human Re-initiation Complexes. Weisser M, Schäfer T, Leibundgut M, Böhringer D, Aylett CHS, Ban N. Mol Cell 67 447-456.e7 (2017)
  4. Tma64/eIF2D, Tma20/MCT-1, and Tma22/DENR Recycle Post-termination 40S Subunits In Vivo. Young DJ, Makeeva DS, Zhang F, Anisimova AS, Stolboushkina EA, Ghobakhlou F, Shatsky IN, Dmitriev SE, Hinnebusch AG, Guydosh NR. Mol Cell 71 761-774.e5 (2018)
  5. Charting DENR-dependent translation reinitiation uncovers predictive uORF features and links to circadian timekeeping via Clock. Castelo-Szekely V, De Matos M, Tusup M, Pascolo S, Ule J, Gatfield D. Nucleic Acids Res 47 5193-5209 (2019)
  6. The METTL5-TRMT112 N6-methyladenosine methyltransferase complex regulates mRNA translation via 18S rRNA methylation. Sepich-Poore C, Zheng Z, Schmitt E, Wen K, Zhang ZS, Cui XL, Dai Q, Zhu AC, Zhang L, Sanchez Castillo A, Tan H, Peng J, Zhuang X, He C, Nachtergaele S. J Biol Chem 298 101590 (2022)
  7. 40S ribosome profiling reveals distinct roles for Tma20/Tma22 (MCT-1/DENR) and Tma64 (eIF2D) in 40S subunit recycling. Young DJ, Meydan S, Guydosh NR. Nat Commun 12 2976 (2021)
  8. Translatome and transcriptome analysis of TMA20 (MCT-1) and TMA64 (eIF2D) knockout yeast strains. Makeeva DS, Lando AS, Anisimova A, Egorov AA, Logacheva MD, Penin AA, Andreev DE, Sinitcyn PG, Terenin IM, Shatsky IN, Kulakovskiy IV, Dmitriev SE. Data Brief 23 103701 (2019)
  9. Targeting prooxidant MnSOD effect inhibits triple-negative breast cancer (TNBC) progression and M2 macrophage functions under the oncogenic stress. Al Haq AT, Tseng HY, Chen LM, Wang CC, Hsu HL. Cell Death Dis 13 49 (2022)
  10. DENR controls JAK2 translation to induce PD-L1 expression for tumor immune evasion. Chen B, Hu J, Hu X, Chen H, Bao R, Zhou Y, Ye Y, Zhan M, Cai W, Li H, Li HB. Nat Commun 13 2059 (2022)
  11. Overlapping open reading frames strongly reduce human and yeast STN1 gene expression and affect telomere function. Torrance V, Lydall D. PLoS Genet 14 e1007523 (2018)
  12. MCTS1 Directly Binds to TWF1 and Synergistically Modulate Cyclin D1 and C-Myc Translation in Luminal A/B Breast Cancer Cells. Tian C, Zeng S, Luo J. Onco Targets Ther 13 5353-5361 (2020)
  13. A viral RNA motif involved in signaling the initiation of translation on non-AUG codons. Sanz MA, Almela EG, García-Moreno M, Marina AI, Carrasco L. RNA 25 431-452 (2019)
  14. Role of aIF1 in Pyrococcus abyssi translation initiation. Monestier A, Lazennec-Schurdevin C, Coureux PD, Mechulam Y, Schmitt E. Nucleic Acids Res 46 11061-11074 (2018)
  15. Crystal structure of the C-terminal domain of DENR. Lomakin IB, De S, Wang J, Borkar AN, Steitz TA. Comput Struct Biotechnol J 18 696-704 (2020)
  16. Rebirth of the translational machinery: The importance of recycling ribosomes. Young DJ, Guydosh NR. Bioessays 44 e2100269 (2022)
  17. A Virtual Screening Platform Identifies Chloroethylagelastatin A as a Potential Ribosomal Inhibitor. Caulfield TR, Hayes KE, Qiu Y, Coban M, Seok Oh J, Lane AL, Yoshimitsu T, Hazlehurst L, Copland JA, Tun HW. Biomolecules 10 E1407 (2020)
  18. Relocalization of Translation Termination and Ribosome Recycling Factors to Stress Granules Coincides with Elevated Stop-Codon Readthrough and Reinitiation Rates upon Oxidative Stress. Makeeva DS, Riggs CL, Burakov AV, Ivanov PA, Kushchenko AS, Bykov DA, Popenko VI, Prassolov VS, Ivanov PV, Dmitriev SE. Cells 12 259 (2023)
  19. Sarecycline inhibits protein translation in Cutibacterium acnes 70S ribosome using a two-site mechanism. Lomakin IB, Devarkar SC, Patel S, Grada A, Bunick CG. Nucleic Acids Res 51 2915-2930 (2023)
  20. CRISPR screening reveals a dependency on ribosome recycling for efficient SARS-CoV-2 programmed ribosomal frameshifting and viral replication. Rehfeld F, Eitson JL, Ohlson MB, Chang TC, Schoggins JW, Mendell JT. Cell Rep 42 112076 (2023)
  21. Molecular basis for recognition and deubiquitination of 40S ribosomes by Otu2. Ikeuchi K, Ivic N, Buschauer R, Cheng J, Fröhlich T, Matsuo Y, Berninghausen O, Inada T, Becker T, Beckmann R. Nat Commun 14 2730 (2023)
  22. Principles, mechanisms, and biological implications of translation termination-reinitiation. Sherlock ME, Baquero Galvis L, Vicens Q, Kieft JS, Jagannathan S. RNA 29 865-884 (2023)
  23. eIF3j facilitates loading of release factors into the ribosome. Egorova T, Biziaev N, Shuvalov A, Sokolova E, Mukba S, Evmenov K, Zotova M, Kushchenko A, Shuvalova E, Alkalaeva E. Nucleic Acids Res 49 11181-11196 (2021)


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