Kirmizialtin S - Search Results

1

Cryo_fit: Democratization of flexible fitting for cryo-EM.

Kim DN, Moriarty NW, Kirmizialtin S, Afonine PV, Poon B, Sobolev OV, Adams PD, Sanbonmatsu K. Kim DN, et al. Among authors: kirmizialtin s. J Struct Biol. 2019 Oct 1;208(1):1-6. doi: 10.1016/j.jsb.2019.05.012. Epub 2019 Jul 3. J Struct Biol. 2019. PMID: 31279069 Free PMC article.

2

Integrating molecular dynamics simulations with chemical probing experiments using SHAPE-FIT.

Kirmizialtin S, Hennelly SP, Schug A, Onuchic JN, Sanbonmatsu KY. Kirmizialtin S, et al. Methods Enzymol. 2015;553:215-34. doi: 10.1016/bs.mie.2014.10.061. Epub 2015 Feb 7. Methods Enzymol. 2015. PMID: 25726467 Free PMC article.

3

Using Molecular Simulation to Model High-Resolution Cryo-EM Reconstructions.

Kirmizialtin S, Loerke J, Behrmann E, Spahn CMT, Sanbonmatsu KY. Kirmizialtin S, et al. Methods Enzymol. 2015;558:497-514. doi: 10.1016/bs.mie.2015.02.011. Epub 2015 May 9. Methods Enzymol. 2015. PMID: 26068751

4

Tracking fluctuation hotspots on the yeast ribosome through the elongation cycle.

Gulay SP, Bista S, Varshney A, Kirmizialtin S, Sanbonmatsu KY, Dinman JD. Gulay SP, et al. Among authors: kirmizialtin s. Nucleic Acids Res. 2017 May 5;45(8):4958-4971. doi: 10.1093/nar/gkx112. Nucleic Acids Res. 2017. PMID: 28334755 Free PMC article.

5

Enzyme Selectivity of HIV Reverse Transcriptase: Conformations, Ligands, and Free Energy Partition.

Kirmizialtin S, Johnson KA, Elber R. Kirmizialtin S, et al. J Phys Chem B. 2015 Sep 3;119(35):11513-26. doi: 10.1021/acs.jpcb.5b05467. Epub 2015 Aug 14. J Phys Chem B. 2015. PMID: 26225641 Free PMC article.

6

Kinetic and thermodynamic analysis defines roles for two metal ions in DNA polymerase specificity and catalysis.

Gong S, Kirmizialtin S, Chang A, Mayfield JE, Zhang YJ, Johnson KA. Gong S, et al. Among authors: kirmizialtin s. J Biol Chem. 2021 Jan-Jun;296:100184. doi: 10.1074/jbc.RA120.016489. Epub 2020 Dec 17. J Biol Chem. 2021. PMID: 33310704 Free PMC article.

7

RNA dynamics from experimental and computational approaches.

Bussi G, Bonomi M, Gkeka P, Sattler M, Al-Hashimi HM, Auffinger P, Duca M, Foricher Y, Incarnato D, Jones AN, Kirmizialtin S, Krepl M, Orozco M, Palermo G, Pasquali S, Salmon L, Schwalbe H, Westhof E, Zacharias M. Bussi G, et al. Among authors: kirmizialtin s. Structure. 2024 Sep 5;32(9):1281-1287. doi: 10.1016/j.str.2024.07.019. Structure. 2024. PMID: 39241758 Free article.

8

Topography of the free-energy landscape probed via mechanical unfolding of proteins.

Kirmizialtin S, Huang L, Makarov DE. Kirmizialtin S, et al. J Chem Phys. 2005 Jun 15;122(23):234915. doi: 10.1063/1.1931659. J Chem Phys. 2005. PMID: 16008495

9

Molecular machines.

Elber R, Kirmizialtin S. Elber R, et al. Among authors: kirmizialtin s. Curr Opin Struct Biol. 2013 Apr;23(2):206-11. doi: 10.1016/j.sbi.2012.12.002. Epub 2013 Jan 8. Curr Opin Struct Biol. 2013. PMID: 23305848 Review.

10

Dynamic void distribution in myoglobin and five mutants.

Jiang Y, Kirmizialtin S, Sanchez IC. Jiang Y, et al. Among authors: kirmizialtin s. Sci Rep. 2014 Feb 6;4:4011. doi: 10.1038/srep04011. Sci Rep. 2014. PMID: 24500195 Free PMC article.

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