Publications:

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Rational design of phase separating peptides based on phase separating protein sequence of p53.

Scientific Reports

Kamagata, Kiyoto K; Hando, Atsumi A; Ariefai, Maulana M; Iwaki, Nanako N; Kanbayashi, Saori S; Koike, Ryotaro R; Ikeda, Keisuke K

Publication Date: 2023-04-06

Variant appearance in text: p53: V203A

PubMed Link: 37024567

Variant Present in the following documents:

• Main text
• 41598_2023_Article_32632.pdf

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Sequence Properties of An Intramolecular Interaction That Inhibits p53 DNA Binding.

Biomolecules

Gregory, Emily E; Daughdrill, Gary W GW

Publication Date: 2022-10-25

Variant appearance in text: p53: V203A

PubMed Link: 36358908

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• Main text
• biomolecules-12-01558.pdf

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A small molecule reacts with the p53 somatic mutant Y220C to rescue wild-type thermal stability.

Cancer Discovery

Guiley, Keelan Z KZ; Shokat, Kevan M KM

Publication Date: 2022-10-05

Variant appearance in text: p53: V203A

PubMed Link: 36197521

Variant Present in the following documents:

• Main text
• 56.pdf

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CTCF DNA-binding domain undergoes dynamic and selective protein-protein interactions.

Iscience

Zhou, Rong R; Tian, Kai K; Huang, Jie J; Duan, Wenjia W; Fu, Hongye H; Feng, Ying Y; Wang, Hui H; Jiang, Yongpeng Y; Li, Yuanjun Y; Wang, Rui R; Hu, Jiazhi J; Ma, Hanhui H; Qi, Zhi Z; Ji, Xiong X

Publication Date: 2022-09-16

Variant appearance in text: p53: 608T>C

PubMed Link: 36117989

Variant Present in the following documents:

• mmc4.xlsx, sheet 1

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Rational peptide design for regulating liquid-liquid phase separation on the basis of residue-residue contact energy.

Scientific Reports

Kamagata, Kiyoto K; Ariefai, Maulana M; Takahashi, Hiroto H; Hando, Atsumi A; Subekti, Dwiky Rendra Graha DRG; Ikeda, Keisuke K; Hirano, Atsushi A; Kameda, Tomoshi T

Publication Date: 2022-08-12

Variant appearance in text: p53: V203A

PubMed Link: 35962177

Variant Present in the following documents:

• Main text
• 41598_2022_Article_17829.pdf

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Structure-dependent recruitment and diffusion of guest proteins in liquid droplets of FUS.

Scientific Reports

Kamagata, Kiyoto K; Iwaki, Nanako N; Kanbayashi, Saori S; Banerjee, Trishit T; Chiba, Rika R; Gaudon, Virginie V; Castaing, Bertrand B; Sakomoto, Seiji S

Publication Date: 2022-05-02

Variant appearance in text: p53: V203A

PubMed Link: 35501371

Variant Present in the following documents:

• Main text
• 41598_2022_Article_11177.pdf

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Molecular principles of recruitment and dynamics of guest proteins in liquid droplets.

Scientific Reports

Kamagata, Kiyoto K; Iwaki, Nanako N; Hazra, Milan Kumar MK; Kanbayashi, Saori S; Banerjee, Trishit T; Chiba, Rika R; Sakomoto, Seiji S; Gaudon, Virginie V; Castaing, Bertrand B; Takahashi, Hiroto H; Kimura, Michiko M; Oikawa, Hiroyuki H; Takahashi, Satoshi S; Levy, Yaakov Y

Publication Date: 2021-09-29

Variant appearance in text: p53: V203A

PubMed Link: 34588591

Variant Present in the following documents:

• Main text
• 41598_2021_Article_98955.pdf

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Structural and Drug Targeting Insights on Mutant p53.

Cancers

Gomes, Ana Sara AS; Ramos, Helena H; Inga, Alberto A; Sousa, Emília E; Saraiva, Lucília L

Publication Date: 2021-07-03

Variant appearance in text: p53: V203A

PubMed Link: 34283062

Variant Present in the following documents:

• Main text
• cancers-13-03344.pdf

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Transient binding and jumping dynamics of p53 along DNA revealed by sub-millisecond resolved single-molecule fluorescence tracking.

Scientific Reports

Subekti, Dwiky Rendra Graha DRG; Murata, Agato A; Itoh, Yuji Y; Takahashi, Satoshi S; Kamagata, Kiyoto K

Publication Date: 2020-08-13

Variant appearance in text: p53: V203A

PubMed Link: 32792545

Variant Present in the following documents:

• Main text
• 41598_2020_Article_70763.pdf

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Identification of relevant genetic alterations in cancer using topological data analysis.

Nature Communications

Rabadán, Raúl R; Mohamedi, Yamina Y; Rubin, Udi U; Chu, Tim T; Alghalith, Adam N AN; Elliott, Oliver O; Arnés, Luis L; Cal, Santiago S; Obaya, Álvaro J ÁJ; Levine, Arnold J AJ; Cámara, Pablo G PG

Publication Date: 2020-07-30

Variant appearance in text: TP53: V203A

PubMed Link: 32732999

Variant Present in the following documents:

• 41467_2020_17659_MOESM3_ESM.xls, sheet 1

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Tumorigenic p53 mutants undergo common structural disruptions including conversion to α-sheet structure.

Protein Science : A Publication Of The Protein Society

Bromley, Dennis D; Daggett, Valerie V

Publication Date: 2020-09

Variant appearance in text: p53: V203A

PubMed Link: 32715544

Variant Present in the following documents:

• Main text

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Liquid-like droplet formation by tumor suppressor p53 induced by multivalent electrostatic interactions between two disordered domains.

Scientific Reports

Kamagata, Kiyoto K; Kanbayashi, Saori S; Honda, Masaya M; Itoh, Yuji Y; Takahashi, Hiroto H; Kameda, Tomoshi T; Nagatsugi, Fumi F; Takahashi, Satoshi S

Publication Date: 2020-01-17

Variant appearance in text: p53: V203A

PubMed Link: 31953488

Variant Present in the following documents:

• Main text
• 41598_2020_Article_57521.pdf

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Rational design using sequence information only produces a peptide that binds to the intrinsically disordered region of p53.

Scientific Reports

Kamagata, Kiyoto K; Mano, Eriko E; Itoh, Yuji Y; Wakamoto, Takuro T; Kitahara, Ryo R; Kanbayashi, Saori S; Takahashi, Hiroto H; Murata, Agato A; Kameda, Tomoshi T

Publication Date: 2019-06-28

Variant appearance in text: p53: V203A

PubMed Link: 31253862

Variant Present in the following documents:

• Main text
• 41598_2019_Article_44688.pdf

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Finding driver mutations in cancer: Elucidating the role of background mutational processes.

Plos Computational Biology

Brown, Anna-Leigh AL; Li, Minghui M; Goncearenco, Alexander A; Panchenko, Anna R AR

Publication Date: 2019-04

Variant appearance in text: TP53: V203A

PubMed Link: 31034466

Variant Present in the following documents:

• pcbi.1006981.s010.xlsx, sheet 1

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Germ-line and somatic EPHA2 coding variants in lens aging and cataract.

Plos One

Bennett, Thomas M TM; M'Hamdi, Oussama O; Hejtmancik, J Fielding JF; Shiels, Alan A

Publication Date: 2017

Variant appearance in text: TP53: V203A

PubMed Link: 29267365

Variant Present in the following documents:

• pone.0189881.s007.xlsx, sheet 1

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Molecular characterization of circulating colorectal tumor cells defines genetic signatures for individualized cancer care.

Oncotarget

Kong, Say Li SL; Liu, Xingliang X; Suhaimi, Nur-Afidah Mohamed NM; Koh, Kenneth Jia Hao KJH; Hu, Min M; Lee, Daniel Yoke San DYS; Cima, Igor I; Phyo, Wai Min WM; Lee, Esther Xing Wei EXW; Tai, Joyce A JA; Foong, Yu Miin YM; Vo, Jess Honganh JH; Koh, Poh Koon PK; Zhang, Tong T; Ying, Jackie Y JY; Lim, Bing B; Tan, Min-Han MH; Hillmer, Axel M AM

Publication Date: 2017-09-15

Variant appearance in text: TP53: V203A

PubMed Link: 28978093

Variant Present in the following documents:

• oncotarget-08-68026-s002.xlsx, sheet 3

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One-Dimensional Search Dynamics of Tumor Suppressor p53 Regulated by a Disordered C-Terminal Domain.

Biophysical Journal

Murata, Agato A; Itoh, Yuji Y; Mano, Eriko E; Kanbayashi, Saori S; Igarashi, Chihiro C; Takahashi, Hiroto H; Takahashi, Satoshi S; Kamagata, Kiyoto K

Publication Date: 2017-06-06

Variant appearance in text: p53: V203A

PubMed Link: 28591603

Variant Present in the following documents:

• Main text

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Structures of closed and open conformations of dimeric human ATM.

Science Advances

Baretić, Domagoj D; Pollard, Hannah K HK; Fisher, David I DI; Johnson, Christopher M CM; Santhanam, Balaji B; Truman, Caroline M CM; Kouba, Tomas T; Fersht, Alan R AR; Phillips, Christopher C; Williams, Roger L RL

Publication Date: 2017-05

Variant appearance in text: p53: V203A

PubMed Link: 28508083

Variant Present in the following documents:

• Main text
• 1700933.pdf

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p53 Proteoforms and Intrinsic Disorder: An Illustration of the Protein Structure-Function Continuum Concept.

International Journal Of Molecular Sciences

Uversky, Vladimir N VN

Publication Date: 2016-11-10

Variant appearance in text: p53: V203A

PubMed Link: 27834926

Variant Present in the following documents:

• ijms-17-01874-s001.pdf

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iFish: predicting the pathogenicity of human nonsynonymous variants using gene-specific/family-specific attributes and classifiers.

Scientific Reports

Wang, Meng M; Wei, Liping L

Publication Date: 2016-08-16

Variant appearance in text: TP53: V203A

PubMed Link: 27527004

Variant Present in the following documents:

• srep31321-s5.xls, sheet 1

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A Landscape of Pharmacogenomic Interactions in Cancer.

Cell

Iorio, Francesco F; Knijnenburg, Theo A TA; Vis, Daniel J DJ; Bignell, Graham R GR; Menden, Michael P MP; Schubert, Michael M; Aben, Nanne N; Gonçalves, Emanuel E; Barthorpe, Syd S; Lightfoot, Howard H; Cokelaer, Thomas T; Greninger, Patricia P; van Dyk, Ewald E; Chang, Han H; de Silva, Heshani H; Heyn, Holger H; Deng, Xianming X; Egan, Regina K RK; Liu, Qingsong Q; Mironenko, Tatiana T; Mitropoulos, Xeni X; Richardson, Laura L; Wang, Jinhua J; Zhang, Tinghu T; Moran, Sebastian S; Sayols, Sergi S; Soleimani, Maryam M; Tamborero, David D; Lopez-Bigas, Nuria N; Ross-Macdonald, Petra P; Esteller, Manel M; Gray, Nathanael S NS; Haber, Daniel A DA; Stratton, Michael R MR; Benes, Cyril H CH; Wessels, Lodewyk F A LFA; Saez-Rodriguez, Julio J; McDermott, Ultan U; Garnett, Mathew J MJ

Publication Date: 2016-07-28

Variant appearance in text: TP53: 608T>C; V203A

PubMed Link: 27397505

Variant Present in the following documents:

• mmc3.xlsx, sheet 2

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Solution structure and binding specificity of the p63 DNA binding domain.

Scientific Reports

Enthart, Andreas A; Klein, Christian C; Dehner, Alexander A; Coles, Murray M; Gemmecker, Gerd G; Kessler, Horst H; Hagn, Franz F

Publication Date: 2016-05-26

Variant appearance in text: p53: V203A

PubMed Link: 27225672

Variant Present in the following documents:

• Main text
• srep26707.pdf

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Pin1-Induced Proline Isomerization in Cytosolic p53 Mediates BAX Activation and Apoptosis.

Molecular Cell

Follis, Ariele Viacava AV; Llambi, Fabien F; Merritt, Parker P; Chipuk, Jerry E JE; Green, Douglas R DR; Kriwacki, Richard W RW

Publication Date: 2015-08-20

Variant appearance in text: p53: V203A

PubMed Link: 26236013

Variant Present in the following documents:

• Main text

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GESPA: classifying nsSNPs to predict disease association.

Bmc Bioinformatics

Khurana, Jay K JK; Reeder, Jay E JE; Shrimpton, Antony E AE; Thakar, Juilee J

Publication Date: 2015-07-25

Variant appearance in text: TP53: V203A

PubMed Link: 26206375

Variant Present in the following documents:

• 12859_2015_673_MOESM1_ESM.xls, sheet 1

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Oxidation of p53 through DNA charge transport involves a network of disulfides within the DNA-binding domain.

Biochemistry

Schaefer, Kathryn N KN; Geil, Wendy M WM; Sweredoski, Michael J MJ; Moradian, Annie A; Hess, Sonja S; Barton, Jacqueline K JK

Publication Date: 2015-01-27

Variant appearance in text: p53: V203A

PubMed Link: 25584637

Variant Present in the following documents:

• Main text
• bi501424v.pdf
• bi501424v_si_001.pdf

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Benchmarking mutation effect prediction algorithms using functionally validated cancer-related missense mutations.

Genome Biology

Martelotto, Luciano G LG; Ng, Charlotte Ky CK; De Filippo, Maria R MR; Zhang, Yan Y; Piscuoglio, Salvatore S; Lim, Raymond S RS; Shen, Ronglai R; Norton, Larry L; Reis-Filho, Jorge S JS; Weigelt, Britta B

Publication Date: 2014-10-28

Variant appearance in text: TP53: V203A

PubMed Link: 25348012

Variant Present in the following documents:

• 13059_2014_484_MOESM2_ESM.xlsx, sheet 1

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mCSM: predicting the effects of mutations in proteins using graph-based signatures.

Bioinformatics (Oxford, England)

Pires, Douglas E V DE; Ascher, David B DB; Blundell, Tom L TL

Publication Date: 2014-02-01

Variant appearance in text: p53: V203A

PubMed Link: 24281696

Variant Present in the following documents:

• supp_btt691_suppl.pdf

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Structures of oncogenic, suppressor and rescued p53 core-domain variants: mechanisms of mutant p53 rescue.

Acta Crystallographica. Section D, Biological Crystallography

Wallentine, Brad D BD; Wang, Ying Y; Tretyachenko-Ladokhina, Vira V; Tan, Martha M; Senear, Donald F DF; Luecke, Hartmut H

Publication Date: 2013-10

Variant appearance in text: p53: V203A

PubMed Link: 24100332

Variant Present in the following documents:

• Main text

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Molecular basis for modulation of the p53 target selectivity by KLF4.

Plos One

Brandt, Tobias T; Townsley, Fiona M FM; Teufel, Daniel P DP; Freund, Stefan M V SM; Veprintsev, Dmitry B DB

Publication Date: 2012

Variant appearance in text: p53: V203A

PubMed Link: 23118962

Variant Present in the following documents:

• pone.0048252.pdf

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Predicting the functional impact of protein mutations: application to cancer genomics.

Nucleic Acids Research

Reva, Boris B; Antipin, Yevgeniy Y; Sander, Chris C

Publication Date: 2011-09-01

Variant appearance in text: TP53: V203A

PubMed Link: 21727090

Variant Present in the following documents:

• supp_gkr407_Supplement2_Table_SM1_COSMIC_mutations.xls, sheet 1

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Structural effects of the L145Q, V157F, and R282W cancer-associated mutations in the p53 DNA-binding core domain.

Biochemistry

Calhoun, Sara S; Daggett, Valerie V

Publication Date: 2011-06-14

Variant appearance in text: p53: V203A

PubMed Link: 21561095

Variant Present in the following documents:

• Main text

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A single-molecule characterization of p53 search on DNA.

Proceedings Of The National Academy Of Sciences Of The United States Of America

Tafvizi, Anahita A; Huang, Fang F; Fersht, Alan R AR; Mirny, Leonid A LA; van Oijen, Antoine M AM

Publication Date: 2011-01-11

Variant appearance in text: p53: V203A

PubMed Link: 21178072

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• Main text

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SCH529074, a small molecule activator of mutant p53, which binds p53 DNA binding domain (DBD), restores growth-suppressive function to mutant p53 and interrupts HDM2-mediated ubiquitination of wild type p53.

The Journal Of Biological Chemistry

Demma, Mark M; Maxwell, Eugene E; Ramos, Robert R; Liang, Lianzhu L; Li, Cheng C; Hesk, David D; Rossman, Randall R; Mallams, Alan A; Doll, Ronald R; Liu, Ming M; Seidel-Dugan, Cynthia C; Bishop, W Robert WR; Dasmahapatra, Bimalendu B

Publication Date: 2010-04-02

Variant appearance in text: p53: V203A

PubMed Link: 20124408

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• Main text

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Structural basis for understanding oncogenic p53 mutations and designing rescue drugs.

Proceedings Of The National Academy Of Sciences Of The United States Of America

Joerger, Andreas C AC; Ang, Hwee Ching HC; Fersht, Alan R AR

Publication Date: 2006-10-10

Variant appearance in text: p53: V203A

PubMed Link: 17015838

Variant Present in the following documents:

• Main text

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