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Page 1
Influence of the Number, Nature and Position of Methyl Posttranscriptional Modifications on Nucleobase Stacking in RNA.
Chemphyschem. 2021 Aug 4;22(15):1622-1630. doi: 10.1002/cphc.202100333. Epub 2021 Jun 21.
Chemphyschem. 2021.
PMID: 34101319
Posttranscriptional modifications at the 37th position in the anticodon stem-loop of tRNA: structural insights from MD simulations.
Seelam Prabhakar P, Takyi NA, Wetmore SD.
Seelam Prabhakar P, et al.
RNA. 2021 Feb;27(2):202-220. doi: 10.1261/rna.078097.120. Epub 2020 Nov 19.
RNA. 2021.
PMID: 33214333
Free PMC article.
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Molecular Dynamics Simulations of the Aptamer Domain of Guanidinium Ion Binding Riboswitch ykkC-III: Structural Insights into the Discrimination of Cognate and Alternate Ligands.
Negi I, Mahmi AS, Seelam Prabhakar P, Sharma P.
Negi I, et al. Among authors: seelam prabhakar p.
J Chem Inf Model. 2021 Oct 25;61(10):5243-5255. doi: 10.1021/acs.jcim.1c01022. Epub 2021 Oct 5.
J Chem Inf Model. 2021.
PMID: 34609872
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Lighting Up the Thrombin-Binding Aptamer G-Quadruplex with an Internal Cyanine-Indole-Quinolinium Nucleobase Surrogate. Direct Fluorescent Intensity Readout for Thrombin Binding without Topology Switching.
Gray MD, Deore PS, Chung AJ, Van Riesen AJ, Manderville RA, Prabhakar PS, Wetmore SD.
Gray MD, et al. Among authors: prabhakar ps.
Bioconjug Chem. 2020 Nov 18;31(11):2596-2606. doi: 10.1021/acs.bioconjchem.0c00530. Epub 2020 Nov 6.
Bioconjug Chem. 2020.
PMID: 33156614
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Structural Patterns and Stabilities of Hydrogen-Bonded Pairs Involving Ribonucleotide Bases and Arginine, Glutamic Acid, or Glutamine Residues of Proteins from Quantum Mechanical Calculations.
Kagra D, Prabhakar PS, Sharma KD, Sharma P.
Kagra D, et al. Among authors: prabhakar ps.
ACS Omega. 2020 Feb 12;5(7):3612-3623. doi: 10.1021/acsomega.9b04083. eCollection 2020 Feb 25.
ACS Omega. 2020.
PMID: 32118177
Free PMC article.
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Impact of the Position of the Chemically Modified 5-Furyl-2'-Deoxyuridine Nucleoside on the Thrombin DNA Aptamer-Protein Complex: Structural Insights into Aptamer Response from MD Simulations.
Seelam Prabhakar P, A Manderville R, D Wetmore S.
Seelam Prabhakar P, et al.
Molecules. 2019 Aug 10;24(16):2908. doi: 10.3390/molecules24162908.
Molecules. 2019.
PMID: 31405145
Free PMC article.
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