Literature DB >> 33401096

An integrated view of p53 dynamics, function, and reactivation.

Özlem Demir1, Emilia P Barros1, Tavina L Offutt2, Mia Rosenfeld1, Rommie E Amaro3.   

Abstract

The tumor suppressor p53 plays a vital role in responding to cell stressors such as DNA damage, hypoxia, and tumor formation by inducing cell-cycle arrest, senescence, or apoptosis. Expression level alterations and mutational frequency implicates p53 in most human cancers. In this review, we show how both computational and experimental methods have been used to provide an integrated view of p53 dynamics, function, and reactivation potential. We argue that p53 serves as an exceptional case study for developing methods in modeling intrinsically disordered proteins. We describe how these methods can be leveraged to improve p53 reactivation molecule design and other novel therapeutic modalities, such as PROteolysis TARgeting Chimeras (PROTACs).
Copyright © 2020 The Authors. Published by Elsevier Ltd.. All rights reserved.

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Year:  2021        PMID: 33401096      PMCID: PMC8985518          DOI: 10.1016/j.sbi.2020.11.005

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  51 in total

1.  Multimodal Structural Distribution of the p53 C-Terminal Domain upon Binding to S100B via a Generalized Ensemble Method: From Disorder to Extradisorder.

Authors:  Shinji Iida; Takeshi Kawabata; Kota Kasahara; Haruki Nakamura; Junichi Higo
Journal:  J Chem Theory Comput       Date:  2019-03-22       Impact factor: 6.006

2.  Interaction between p53 N terminus and core domain regulates specific and nonspecific DNA binding.

Authors:  Fan He; Wade Borcherds; Tanjing Song; Xi Wei; Mousumi Das; Lihong Chen; Gary W Daughdrill; Jiandong Chen
Journal:  Proc Natl Acad Sci U S A       Date:  2019-04-15       Impact factor: 11.205

3.  Computed Binding of Peptides to Proteins with MELD-Accelerated Molecular Dynamics.

Authors:  Joseph A Morrone; Alberto Perez; Justin MacCallum; Ken A Dill
Journal:  J Chem Theory Comput       Date:  2017-01-19       Impact factor: 6.006

Review 4.  PROteolysis TArgeting Chimeras (PROTACs) - Past, present and future.

Authors:  Mariell Pettersson; Craig M Crews
Journal:  Drug Discov Today Technol       Date:  2019-02-13

5.  Structural mechanism of the bromodomain of the coactivator CBP in p53 transcriptional activation.

Authors:  Shiraz Mujtaba; Yan He; Lei Zeng; Sherry Yan; Olga Plotnikova; Roberto Sanchez; Nancy J Zeleznik-Le; Ze'ev Ronai; Ming-Ming Zhou
Journal:  Mol Cell       Date:  2004-01-30       Impact factor: 17.970

6.  Protein-peptide association kinetics beyond the seconds timescale from atomistic simulations.

Authors:  Fabian Paul; Christoph Wehmeyer; Esam T Abualrous; Hao Wu; Michael D Crabtree; Johannes Schöneberg; Jane Clarke; Christian Freund; Thomas R Weikl; Frank Noé
Journal:  Nat Commun       Date:  2017-10-23       Impact factor: 14.919

7.  Characterization of partially ordered states in the intrinsically disordered N-terminal domain of p53 using millisecond molecular dynamics simulations.

Authors:  Pablo Herrera-Nieto; Adrià Pérez; Gianni De Fabritiis
Journal:  Sci Rep       Date:  2020-07-24       Impact factor: 4.379

8.  Targeting Cavity-Creating p53 Cancer Mutations with Small-Molecule Stabilizers: the Y220X Paradigm.

Authors:  Matthias R Bauer; Andreas Krämer; Giovanni Settanni; Rhiannon N Jones; Xiaomin Ni; Raysa Khan Tareque; Alan R Fersht; John Spencer; Andreas C Joerger
Journal:  ACS Chem Biol       Date:  2020-02-21       Impact factor: 5.100

Review 9.  Follow the Mutations: Toward Class-Specific, Small-Molecule Reactivation of p53.

Authors:  Stewart N Loh
Journal:  Biomolecules       Date:  2020-02-14

10.  Computational identification of a transiently open L1/S3 pocket for reactivation of mutant p53.

Authors:  Christopher D Wassman; Roberta Baronio; Özlem Demir; Brad D Wallentine; Chiung-Kuang Chen; Linda V Hall; Faezeh Salehi; Da-Wei Lin; Benjamin P Chung; G Wesley Hatfield; A Richard Chamberlin; Hartmut Luecke; Richard H Lathrop; Peter Kaiser; Rommie E Amaro
Journal:  Nat Commun       Date:  2013       Impact factor: 14.919

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  7 in total

1.  Energetics of a protein disorder-order transition in small molecule recognition.

Authors:  Cesar Mendoza-Martinez; Michail Papadourakis; Salomé Llabrés; Arun A Gupta; Paul N Barlow; Julien Michel
Journal:  Chem Sci       Date:  2022-04-04       Impact factor: 9.969

2.  Prognostic value of p16, p53, and pcna in sarcoma and an evaluation of immune infiltration.

Authors:  Dechao Cai; Xiao Ma; Huihui Guo; Haotian Zhang; Ashuai Bian; Haoran Yu; Wendan Cheng
Journal:  J Orthop Surg Res       Date:  2022-06-10       Impact factor: 2.677

3.  PIN1 Protects Hair Cells and Auditory HEI-OC1 Cells against Senescence by Inhibiting the PI3K/Akt/mTOR Pathway.

Authors:  Yanzhuo Zhang; Zhe Lv; Yudong Liu; Huan Cao; Jianwang Yang; Baoshan Wang
Journal:  Oxid Med Cell Longev       Date:  2021-06-02       Impact factor: 6.543

4.  Structural Basis of Mutation-Dependent p53 Tetramerization Deficiency.

Authors:  Marta Rigoli; Giovanni Spagnolli; Giulia Lorengo; Paola Monti; Raffaello Potestio; Emiliano Biasini; Alberto Inga
Journal:  Int J Mol Sci       Date:  2022-07-19       Impact factor: 6.208

5.  Quantitative prediction of ensemble dynamics, shapes and contact propensities of intrinsically disordered proteins.

Authors:  Lei Yu; Rafael Brüschweiler
Journal:  PLoS Comput Biol       Date:  2022-09-09       Impact factor: 4.779

6.  Nonsense-mediated mRNA decay inhibition synergizes with MDM2 inhibition to suppress TP53 wild-type cancer cells in p53 isoform-dependent manner.

Authors:  Ying Li; Meng Wu; Lili Zhang; Li Wan; Hexin Li; Lanxin Zhang; Gaoyuan Sun; Wei Huang; Junhua Zhang; Fei Su; Min Tang; Fei Xiao
Journal:  Cell Death Discov       Date:  2022-09-30

7.  Enhanced Efficacy of Aurora Kinase Inhibitors in G2/M Checkpoint Deficient TP53 Mutant Uterine Carcinomas Is Linked to the Summation of LKB1-AKT-p53 Interactions.

Authors:  Katherine N Lynch; Joyce F Liu; Nikolas Kesten; Kin-Hoe Chow; Aniket Shetty; Ruiyang He; Mosammat Faria Afreen; Liping Yuan; Ursula A Matulonis; Whitfield B Growdon; Michael G Muto; Neil S Horowitz; Colleen M Feltmate; Michael J Worley; Ross S Berkowitz; Christopher P Crum; Bo R Rueda; Sarah J Hill
Journal:  Cancers (Basel)       Date:  2021-05-03       Impact factor: 6.639

  7 in total

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