Demir O - Search Results

1

Modulation of catalytic function by differential plasticity of the active site: case study of Trypanosoma cruzi trans-sialidase and Trypanosoma rangeli sialidase.

Demir O, Roitberg AE. Demir O, et al. Biochemistry. 2009 Apr 21;48(15):3398-406. doi: 10.1021/bi802230y. Biochemistry. 2009. PMID: 19216574 Free PMC article.

2

Dynamics and Molecular Mechanisms of p53 Transcriptional Activation.

Offutt TL, Ieong PU, Demir Ö, Amaro RE. Offutt TL, et al. Among authors: demir o. Biochemistry. 2018 Nov 20;57(46):6528-6537. doi: 10.1021/acs.biochem.8b01005. Epub 2018 Nov 12. Biochemistry. 2018. PMID: 30388364 Free PMC article.

3

Determinants of Oligonucleotide Selectivity of APOBEC3B.

Wagner JR, Demir Ö, Carpenter MA, Aihara H, Harki DA, Harris RS, Amaro RE. Wagner JR, et al. Among authors: demir o. J Chem Inf Model. 2019 May 28;59(5):2264-2273. doi: 10.1021/acs.jcim.8b00427. Epub 2018 Sep 10. J Chem Inf Model. 2019. PMID: 30130104 Free PMC article.

4

Designing novel inhibitors of Trypanosoma brucei.

Demir O, Amaro RE. Demir O, et al. Methods Mol Biol. 2013;993:231-43. doi: 10.1007/978-1-62703-342-8_15. Methods Mol Biol. 2013. PMID: 23568474

5

Full-length p53 tetramer bound to DNA and its quaternary dynamics.

Demir Ö, Ieong PU, Amaro RE. Demir Ö, et al. Oncogene. 2017 Mar 9;36(10):1451-1460. doi: 10.1038/onc.2016.321. Epub 2016 Sep 19. Oncogene. 2017. PMID: 27641333 Free PMC article.

6

Ensemble-based computational approach discriminates functional activity of p53 cancer and rescue mutants.

Demir Ö, Baronio R, Salehi F, Wassman CD, Hall L, Hatfield GW, Chamberlin R, Kaiser P, Lathrop RH, Amaro RE. Demir Ö, et al. PLoS Comput Biol. 2011 Oct;7(10):e1002238. doi: 10.1371/journal.pcbi.1002238. Epub 2011 Oct 20. PLoS Comput Biol. 2011. PMID: 22028641 Free PMC article.

7

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

Demir Ö, Barros EP, Offutt TL, Rosenfeld M, Amaro RE. Demir Ö, et al. Curr Opin Struct Biol. 2021 Apr;67:187-194. doi: 10.1016/j.sbi.2020.11.005. Epub 2021 Jan 2. Curr Opin Struct Biol. 2021. PMID: 33401096 Free PMC article. Review.

8

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

Wassman CD, Baronio R, Demir Ö, Wallentine BD, Chen CK, Hall LV, Salehi F, Lin DW, Chung BP, Hatfield GW, Richard Chamberlin A, Luecke H, Lathrop RH, Kaiser P, Amaro RE. Wassman CD, et al. Among authors: demir o. Nat Commun. 2013;4:1407. doi: 10.1038/ncomms2361. Nat Commun. 2013. PMID: 23360998 Free PMC article.

9

Computer-aided discovery of Trypanosoma brucei RNA-editing terminal uridylyl transferase 2 inhibitors.

Demir O, Labaied M, Merritt C, Stuart K, Amaro RE. Demir O, et al. Chem Biol Drug Des. 2014 Aug;84(2):131-9. doi: 10.1111/cbdd.12302. Epub 2014 Jun 5. Chem Biol Drug Des. 2014. PMID: 24903413 Free PMC article.

10

Molecular docking to flexible targets.

Sørensen J, Demir Ö, Swift RV, Feher VA, Amaro RE. Sørensen J, et al. Among authors: demir o. Methods Mol Biol. 2015;1215:445-69. doi: 10.1007/978-1-4939-1465-4_20. Methods Mol Biol. 2015. PMID: 25330975

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