Rational design and studies of excimer forming novel dual probes to target RNA

Standard

Rational design and studies of excimer forming novel dual probes to target RNA. / Krasheninina, O. A.; Lomzov, A. A.; Fishman, V. S. et al.

In: Bioorganic and Medicinal Chemistry, Vol. 25, No. 7, 01.04.2017, p. 2244-2250.

Research output: Contribution to journal › Article › peer-review

Harvard

Krasheninina, OA, Lomzov, AA, Fishman, VS, Novopashina, DS & Venyaminova, AG 2017, 'Rational design and studies of excimer forming novel dual probes to target RNA', Bioorganic and Medicinal Chemistry, vol. 25, no. 7, pp. 2244-2250. https://doi.org/10.1016/j.bmc.2017.02.042

APA

Krasheninina, O. A., Lomzov, A. A., Fishman, V. S., Novopashina, D. S., & Venyaminova, A. G. (2017). Rational design and studies of excimer forming novel dual probes to target RNA. Bioorganic and Medicinal Chemistry, 25(7), 2244-2250. https://doi.org/10.1016/j.bmc.2017.02.042

Vancouver

Krasheninina OA, Lomzov AA, Fishman VS, Novopashina DS, Venyaminova AG. Rational design and studies of excimer forming novel dual probes to target RNA. Bioorganic and Medicinal Chemistry. 2017 Apr 1;25(7):2244-2250. doi: 10.1016/j.bmc.2017.02.042

Author

Krasheninina, O. A. ; Lomzov, A. A. ; Fishman, V. S. et al. / Rational design and studies of excimer forming novel dual probes to target RNA. In: Bioorganic and Medicinal Chemistry. 2017 ; Vol. 25, No. 7. pp. 2244-2250.

BibTeX

@article{a6401747367143b2882266a97783fb13,

title = "Rational design and studies of excimer forming novel dual probes to target RNA",

abstract = "In this paper, we report structure-based rational design and physico-chemical and biological studies of novel pyrene excimer forming dual probes for visualization of intracellular RNAs. Herein, the probes based on 2′-O-methyl RNA with linkers of different structure and length between pyrene moiety and ribose are studied with respect to their hybridization and spectral properties. We found optimal linkers that provide more intense excimer emission (at ∼480 nm) of RNA-bound probes; particularly, the length of the linker arm of the 3′-component of dual probes plays a key role in formation of pyrene excimer. Calculated molecular dynamics trajectories and probability distributions of pyrene-pyrene dimer formation upon hybridization of the dual probes with RNA target are in agreement with the obtained fluorescence spectroscopy data for the corresponding duplexes. Our study demonstrates the excellent binding properties of new dual probes to structured RNA and their feasibility for the visualization of intracellular RNA targets.",

keywords = "Drug Design, Oligonucleotide Probes/chemistry, RNA/chemistry, Spectrometry, Fluorescence, Structure-Activity Relationship, VISUALIZATION, PYRENE, BINARY PROBES, HYBRIDIZATION, NUCLEOSIDE, DNA, FLUORESCENT-PROBES, DERIVATIVES",

author = "Krasheninina, {O. A.} and Lomzov, {A. A.} and Fishman, {V. S.} and Novopashina, {D. S.} and Venyaminova, {A. G.}",

year = "2017",

month = apr,

day = "1",

doi = "10.1016/j.bmc.2017.02.042",

language = "English",

volume = "25",

pages = "2244--2250",

journal = "Bioorganic and Medicinal Chemistry",

issn = "0968-0896",

publisher = "Elsevier Ltd",

number = "7",

}

RIS

TY - JOUR

T1 - Rational design and studies of excimer forming novel dual probes to target RNA

AU - Krasheninina, O. A.

AU - Lomzov, A. A.

AU - Fishman, V. S.

AU - Novopashina, D. S.

AU - Venyaminova, A. G.

PY - 2017/4/1

Y1 - 2017/4/1

N2 - In this paper, we report structure-based rational design and physico-chemical and biological studies of novel pyrene excimer forming dual probes for visualization of intracellular RNAs. Herein, the probes based on 2′-O-methyl RNA with linkers of different structure and length between pyrene moiety and ribose are studied with respect to their hybridization and spectral properties. We found optimal linkers that provide more intense excimer emission (at ∼480 nm) of RNA-bound probes; particularly, the length of the linker arm of the 3′-component of dual probes plays a key role in formation of pyrene excimer. Calculated molecular dynamics trajectories and probability distributions of pyrene-pyrene dimer formation upon hybridization of the dual probes with RNA target are in agreement with the obtained fluorescence spectroscopy data for the corresponding duplexes. Our study demonstrates the excellent binding properties of new dual probes to structured RNA and their feasibility for the visualization of intracellular RNA targets.

AB - In this paper, we report structure-based rational design and physico-chemical and biological studies of novel pyrene excimer forming dual probes for visualization of intracellular RNAs. Herein, the probes based on 2′-O-methyl RNA with linkers of different structure and length between pyrene moiety and ribose are studied with respect to their hybridization and spectral properties. We found optimal linkers that provide more intense excimer emission (at ∼480 nm) of RNA-bound probes; particularly, the length of the linker arm of the 3′-component of dual probes plays a key role in formation of pyrene excimer. Calculated molecular dynamics trajectories and probability distributions of pyrene-pyrene dimer formation upon hybridization of the dual probes with RNA target are in agreement with the obtained fluorescence spectroscopy data for the corresponding duplexes. Our study demonstrates the excellent binding properties of new dual probes to structured RNA and their feasibility for the visualization of intracellular RNA targets.

KW - Drug Design

KW - Oligonucleotide Probes/chemistry

KW - RNA/chemistry

KW - Spectrometry, Fluorescence

KW - Structure-Activity Relationship

KW - VISUALIZATION

KW - PYRENE

KW - BINARY PROBES

KW - HYBRIDIZATION

KW - NUCLEOSIDE

KW - DNA

KW - FLUORESCENT-PROBES

KW - DERIVATIVES

UR - http://www.scopus.com/inward/record.url?scp=85014508885&partnerID=8YFLogxK

U2 - 10.1016/j.bmc.2017.02.042

DO - 10.1016/j.bmc.2017.02.042

M3 - Article

C2 - 28279557

AN - SCOPUS:85014508885

VL - 25

SP - 2244

EP - 2250

JO - Bioorganic and Medicinal Chemistry

JF - Bioorganic and Medicinal Chemistry

SN - 0968-0896

IS - 7

ER -

ID: 10278226