Publications:

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OPUS-Mut: Studying the Effect of Protein Mutation through Side-Chain Modeling.

Journal Of Chemical Theory And Computation

Xu, Gang G; Wang, Qinghua Q; Ma, Jianpeng J

Publication Date: 2023-02-22

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PubMed Link: 36813264

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• ct2c00847.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: M133L

PubMed Link: 36197521

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• 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: 397A>T

PubMed Link: 36117989

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• mmc4.xlsx, sheet 1

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Clinical genomic profiling in the management of patients with soft tissue and bone sarcoma.

Nature Communications

Gounder, Mrinal M MM; Agaram, Narasimhan P NP; Trabucco, Sally E SE; Robinson, Victoria V; Ferraro, Richard A RA; Millis, Sherri Z SZ; Krishnan, Anita A; Lee, Jessica J; Attia, Steven S; Abida, Wassim W; Drilon, Alexander A; Chi, Ping P; Angelo, Sandra P D' SP; Dickson, Mark A MA; Keohan, Mary Lou ML; Kelly, Ciara M CM; Agulnik, Mark M; Chawla, Sant P SP; Choy, Edwin E; Chugh, Rashmi R; Meyer, Christian F CF; Myer, Parvathi A PA; Moore, Jessica L JL; Okimoto, Ross A RA; Pollock, Raphael E RE; Ravi, Vinod V; Singh, Arun S AS; Somaiah, Neeta N; Wagner, Andrew J AJ; Healey, John H JH; Frampton, Garrett M GM; Venstrom, Jeffrey M JM; Ross, Jeffrey S JS; Ladanyi, Marc M; Singer, Samuel S; Brennan, Murray F MF; Schwartz, Gary K GK; Lazar, Alexander J AJ; Thomas, David M DM; Maki, Robert G RG; Tap, William D WD; Ali, Siraj M SM; Jin, Dexter X DX

Publication Date: 2022-06-15

Variant appearance in text: TP53: M133L

PubMed Link: 35705558

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• 41467_2022_30496_MOESM2_ESM.xls, sheet 1

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Evolutionary history of the p53 family DNA-binding domain: insights from an Alvinella pompejana homolog.

Cell Death & Disease

Zhang, Qiang Q; Balourdas, Dimitrios-Ilias DI; Baron, Bruno B; Senitzki, Alon A; Haran, Tali E TE; Wiman, Klas G KG; Soussi, Thierry T; Joerger, Andreas C AC

Publication Date: 2022-03-07

Variant appearance in text: p53: M133L

PubMed Link: 35256607

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• 41419_2022_Article_4653.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: M133L

PubMed Link: 34283062

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• Main text
• cancers-13-03344.pdf

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The landscape of driver mutations in cutaneous squamous cell carcinoma.

Npj Genomic Medicine

Chang, Darwin D; Shain, A Hunter AH

Publication Date: 2021-07-16

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PubMed Link: 34272401

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• 41525_2021_226_MOESM5_ESM.xlsx, sheet 1

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A phosphorylation-dependent switch in the disordered p53 transactivation domain regulates DNA binding.

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

Sun, Xun X; Dyson, H Jane HJ; Wright, Peter E PE

Publication Date: 2021-01-05

Variant appearance in text: p53: M133L

PubMed Link: 33443163

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Fitness Landscape of Clonal Hematopoiesis Under Selective Pressure of Immune Checkpoint Blockade.

Jco Precision Oncology

Miller, Peter G PG; Gibson, Christopher J CJ; Mehta, Arnav A; Sperling, Adam S AS; Frederick, Dennie T DT; Manos, Michael P MP; Miao, Benchun B; Hacohen, Nir N; Hodi, F Stephen FS; Boland, Genevieve M GM; Ebert, Benjamin L BL

Publication Date: 2020

Variant appearance in text: TP53: M133L

PubMed Link: 33015529

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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: M133L

PubMed Link: 32715544

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Inhibition of p53 DNA binding by a small molecule protects mice from radiation toxicity.

Oncogene

Li, Qingliang Q; Karim, Rezaul M RM; Cheng, Mo M; Das, Mousumi M; Chen, Lihong L; Zhang, Chen C; Lawrence, Harshani R HR; Daughdrill, Gary W GW; Schonbrunn, Ernst E; Ji, Haitao H; Chen, Jiandong J

Publication Date: 2020-07

Variant appearance in text: p53: M133L

PubMed Link: 32555331

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

Acs Chemical Biology

Bauer, Matthias R MR; Krämer, Andreas A; Settanni, Giovanni G; Jones, Rhiannon N RN; Ni, Xiaomin X; Khan Tareque, Raysa R; Fersht, Alan R AR; Spencer, John J; Joerger, Andreas C AC

Publication Date: 2020-03-20

Variant appearance in text: p53: M133L

PubMed Link: 31990523

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• cb9b00748_si_001.pdf
• cb9b00748.pdf

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A structure-guided molecular chaperone approach for restoring the transcriptional activity of the p53 cancer mutant Y220C.

Future Medicinal Chemistry

Bauer, Matthias R MR; Jones, Rhiannon N RN; Tareque, Raysa K RK; Springett, Bradley B; Dingler, Felix A FA; Verduci, Lorena L; Patel, Ketan J KJ; Fersht, Alan R AR; Joerger, Andreas C AC; Spencer, John J

Publication Date: 2019-10

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PubMed Link: 31633398

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• fmc-11-2491.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: M133L

PubMed Link: 31034466

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• pcbi.1006981.s010.xlsx, sheet 1

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From uncertainty to pathogenicity: clinical and functional interrogation of a rare TP53 in-frame deletion.

Cold Spring Harbor Molecular Case Studies

Quinn, Emily A EA; Maciaszek, Jamie L JL; Pinto, Emilia M EM; Phillips, Aaron H AH; Berdy, David D; Khandwala, Mohammad M; Upadhyaya, Santhosh A SA; Zambetti, Gerard P GP; Kriwacki, Richard W RW; Ellison, David W DW; Nichols, Kim E KE; Kesserwan, Chimene C

Publication Date: 2019-08

Variant appearance in text: p53: M133L

PubMed Link: 30886117

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• MCS003921Qui.pdf

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Whole-exon sequencing of human myeloma cell lines shows mutations related to myeloma patients at relapse with major hits in the DNA regulation and repair pathways.

Journal Of Hematology & Oncology

Tessoulin, Benoît B; Moreau-Aubry, Agnès A; Descamps, Géraldine G; Gomez-Bougie, Patricia P; Maïga, Sophie S; Gaignard, Alban A; Chiron, David D; Ménoret, Emmanuelle E; Le Gouill, Steven S; Moreau, Philippe P; Amiot, Martine M; Pellat-Deceunynck, Catherine C

Publication Date: 2018-12-13

Variant appearance in text: TP53: 397A>T; Met133Leu

PubMed Link: 30545397

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• 13045_2018_679_MOESM2_ESM.xlsx, sheet 1

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Long-range regulation of p53 DNA binding by its intrinsically disordered N-terminal transactivation domain.

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

Krois, Alexander S AS; Dyson, H Jane HJ; Wright, Peter E PE

Publication Date: 2018-11-27

Variant appearance in text: p53: M133L

PubMed Link: 30420502

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Effects of Y361-auto-phosphorylation on structural plasticity of the HIPK2 kinase domain.

Protein Science : A Publication Of The Protein Society

Scaglione, Antonella A; Monteonofrio, Laura L; Parisi, Giacomo G; Cecchetti, Cristina C; Siepi, Francesca F; Rinaldo, Cinzia C; Giorgi, Alessandra A; Verzili, Daniela D; Zamparelli, Carlotta C; Savino, Carmelinda C; Soddu, Silvia S; Vallone, Beatrice B; Montemiglio, Linda Celeste LC

Publication Date: 2018-03

Variant appearance in text: p53: M133L

PubMed Link: 29277937

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Insights into the Effect of the G245S Single Point Mutation on the Structure of p53 and the Binding of the Protein to DNA.

Molecules (Basel, Switzerland)

Lepre, Marco Gaetano MG; Omar, Sara Ibrahim SI; Grasso, Gianvito G; Morbiducci, Umberto U; Deriu, Marco Agostino MA; Tuszynski, Jack A JA

Publication Date: 2017-08-16

Variant appearance in text: p53: M133L

PubMed Link: 28813011

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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: M133L

PubMed Link: 28508083

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• 1700933.pdf

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Design of a molecular support for cryo-EM structure determination.

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

Martin, Thomas G TG; Bharat, Tanmay A M TA; Joerger, Andreas C AC; Bai, Xiao-Chen XC; Praetorius, Florian F; Fersht, Alan R AR; Dietz, Hendrik H; Scheres, Sjors H W SH

Publication Date: 2016-11-22

Variant appearance in text: p53: M133L

PubMed Link: 27821763

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Aggregation tendencies in the p53 family are modulated by backbone hydrogen bonds.

Scientific Reports

Cino, Elio A EA; Soares, Iaci N IN; Pedrote, Murilo M MM; de Oliveira, Guilherme A P GA; Silva, Jerson L JL

Publication Date: 2016-09-07

Variant appearance in text: p53: M133L

PubMed Link: 27600721

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• srep32535.pdf

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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: M133L

PubMed Link: 27225672

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• srep26707.pdf

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Overview of hepatitis B virus mutations and their implications in the management of infection.

World Journal Of Gastroenterology

Caligiuri, Patrizia P; Cerruti, Rita R; Icardi, Giancarlo G; Bruzzone, Bianca B

Publication Date: 2016-01-07

Variant appearance in text: p53: M133L

PubMed Link: 26755866

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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: M133L

PubMed Link: 26236013

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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: M133L

PubMed Link: 26206375

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• 12859_2015_673_MOESM1_ESM.xls, sheet 1

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Chemical cross-linking and native mass spectrometry: A fruitful combination for structural biology.

Protein Science : A Publication Of The Protein Society

Sinz, Andrea A; Arlt, Christian C; Chorev, Dror D; Sharon, Michal M

Publication Date: 2015-08

Variant appearance in text: p53: M133L

PubMed Link: 25970732

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Propagation of aggregated p53: Cross-reaction and coaggregation vs. seeding.

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

Wang, GuoZhen G; Fersht, Alan R AR

Publication Date: 2015-02-24

Variant appearance in text: p53: M133L

PubMed Link: 25675527

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Mechanism of initiation of aggregation of p53 revealed by Φ-value analysis.

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

Wang, GuoZhen G; Fersht, Alan R AR

Publication Date: 2015-02-24

Variant appearance in text: p53: M133L

PubMed Link: 25675526

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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: M133L

PubMed Link: 25584637

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• 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: M133L

PubMed Link: 25348012

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• 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: M133L

PubMed Link: 24281696

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• 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: M133L

PubMed Link: 24100332

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Wrapping effects within a proposed function-rescue strategy for the Y220C oncogenic mutation of protein p53.

Plos One

Accordino, Sebastián R SR; Rodríguez Fris, J Ariel JA; Appignanesi, Gustavo A GA

Publication Date: 2013

Variant appearance in text: p53: M133L

PubMed Link: 23365691

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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: M133L

PubMed Link: 23118962

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• Main text
• pone.0048252.pdf

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Stability of p53 homologs.

Plos One

Brandt, Tobias T; Kaar, Joel L JL; Fersht, Alan R AR; Veprintsev, Dmitry B DB

Publication Date: 2012

Variant appearance in text: p53: M133L

PubMed Link: 23112865

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Domain-domain interactions in full-length p53 and a specific DNA complex probed by methyl NMR spectroscopy.

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

Bista, Michal M; Freund, Stefan M SM; Fersht, Alan R AR

Publication Date: 2012-09-25

Variant appearance in text: p53: M133L

PubMed Link: 22972749

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Identification & Characterization of lactobacillus salavarius bacteriocins and its relevance in cancer therapeutics.

Bioinformation

Shaikh, Faraz F; Abhinand, Pa P; Ragunath, Pk P

Publication Date: 2012

Variant appearance in text: p53: M133L

PubMed Link: 22829737

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Specific recognition of p53 tetramers by peptides derived from p53 interacting proteins.

Plos One

Gabizon, Ronen R; Brandt, Tobias T; Sukenik, Shahar S; Lahav, Noa N; Lebendiker, Mario M; Shalev, Deborah E DE; Veprintsev, Dmitry D; Friedler, Assaf A

Publication Date: 2012

Variant appearance in text: p53: M133L

PubMed Link: 22693587

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• Main text
• pone.0038060.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: M133L

PubMed Link: 21727090

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• 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: M133L

PubMed Link: 21561095

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Interaction of the p53 DNA-binding domain with its n-terminal extension modulates the stability of the p53 tetramer.

Journal Of Molecular Biology

Natan, Eviatar E; Baloglu, Cetin C; Pagel, Kevin K; Freund, Stefan M V SM; Morgner, Nina N; Robinson, Carol V CV; Fersht, Alan R AR; Joerger, Andreas C AC

Publication Date: 2011-06-10

Variant appearance in text: p53: M133L

PubMed Link: 21457718

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Electron microscopy studies on the quaternary structure of p53 reveal different binding modes for p53 tetramers in complex with DNA.

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

Melero, Roberto R; Rajagopalan, Sridharan S; Lázaro, Melisa M; Joerger, Andreas C AC; Brandt, Tobias T; Veprintsev, Dmitry B DB; Lasso, Gorka G; Gil, David D; Scheres, Sjors H W SH; Carazo, José María JM; Fersht, Alan R AR; Valle, Mikel M

Publication Date: 2011-01-11

Variant appearance in text: p53: M133L

PubMed Link: 21178074

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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: M133L

PubMed Link: 21178072

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The tumor suppressor p53: from structures to drug discovery.

Cold Spring Harbor Perspectives In Biology

Joerger, Andreas C AC; Fersht, Alan R AR

Publication Date: 2010-06

Variant appearance in text: p53: M133L

PubMed Link: 20516128

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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: M133L

PubMed Link: 20124408

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Conservation of DNA-binding specificity and oligomerisation properties within the p53 family.

Bmc Genomics

Brandt, Tobias T; Petrovich, Miriana M; Joerger, Andreas C AC; Veprintsev, Dmitry B DB

Publication Date: 2009-12-23

Variant appearance in text: p53: M133L

PubMed Link: 20030809

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Averaging of electron subtomograms and random conical tilt reconstructions through likelihood optimization.

Structure (London, England : 1993)

Scheres, Sjors H W SHW; Melero, Roberto R; Valle, Mikel M; Carazo, Jose-Maria JM

Publication Date: 2009-12-09

Variant appearance in text: p53: M133L

PubMed Link: 20004160

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Effects of stability on the biological function of p53.

The Journal Of Biological Chemistry

Khoo, Kian Hoe KH; Mayer, Sebastian S; Fersht, Alan R AR

Publication Date: 2009-11-06

Variant appearance in text: p53: M133L

PubMed Link: 19700401

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Ultraslow oligomerization equilibria of p53 and its implications.

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

Natan, Eviatar E; Hirschberg, Daniel D; Morgner, Nina N; Robinson, Carol V CV; Fersht, Alan R AR

Publication Date: 2009-08-25

Variant appearance in text: p53: M133L

PubMed Link: 19667193

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Stabilising the DNA-binding domain of p53 by rational design of its hydrophobic core.

Protein Engineering, Design & Selection : Peds

Khoo, Kian Hoe KH; Joerger, Andreas C AC; Freund, Stefan M V SM; Fersht, Alan R AR

Publication Date: 2009-07

Variant appearance in text: p53: M133L

PubMed Link: 19515728

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Effects of CpG methylation on recognition of DNA by the tumour suppressor p53.

Journal Of Molecular Biology

Petrovich, Miriana M; Veprintsev, Dmitry B DB

Publication Date: 2009-02-13

Variant appearance in text: p53: M133L

PubMed Link: 19084536

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Physical and functional interactions between human mitochondrial single-stranded DNA-binding protein and tumour suppressor p53.

Nucleic Acids Research

Wong, Tuck Seng TS; Rajagopalan, Sridharan S; Townsley, Fiona M FM; Freund, Stefan M SM; Petrovich, Miriana M; Loakes, David D; Fersht, Alan R AR

Publication Date: 2009-02

Variant appearance in text: p53: M133L

PubMed Link: 19066201

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Impact of low-frequency hotspot mutation R282Q on the structure of p53 DNA-binding domain as revealed by crystallography at 1.54 angstroms resolution.

Acta Crystallographica. Section D, Biological Crystallography

Tu, Chao C; Tan, Yu Hong YH; Shaw, Gary G; Zhou, Zheng Z; Bai, Yawen Y; Luo, Ray R; Ji, Xinhua X

Publication Date: 2008-05

Variant appearance in text: p53: M133L

PubMed Link: 18453682

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Algorithm for prediction of tumour suppressor p53 affinity for binding sites in DNA.

Nucleic Acids Research

Veprintsev, Dmitry B DB; Fersht, Alan R AR

Publication Date: 2008-03

Variant appearance in text: p53: M133L

PubMed Link: 18234719

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• gkm1040.pdf

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