Improved DNA Clamps by Stacking to Adjacent Nucleobases

被引：4

作者：

Fatthalla, Maha I. ^{[1
,2
]}

Pedersen, Erik B. ^{[1
]}

机构：

[1] Univ So Denmark, Dept Phys Chem & Pharm, Nucle Acid Ctr, DK-5230 Odense M, Denmark

[2] Helwan Univ, Fac Sci, Dept Chem, Cairo 11795, Egypt

来源：

HELVETICA CHIMICA ACTA | 2012年 / 95卷 / 09期

关键词：

Oligonucleotides; Locked nucleic acid (LNA); Molecular modeling; DNA Clamps; TRIPLE-HELIX FORMATION; LOCKED NUCLEIC-ACIDS; MOLECULAR BEACON STRATEGY; SINGLE-STRANDED-DNA; FORMING OLIGONUCLEOTIDES; ANTISENSE OLIGONUCLEOTIDES; MAMMALIAN-CELLS; TARGETING DNA; LNA; SEQUENCE;

D O I：

10.1002/hlca.201200130

中图分类号：

O6 [化学];

学科分类号：

0703 ;

摘要：

Three or four aromatic rings interconnected by acetylene bridges form a stiff conjugated system with sufficient conformational freedom to make it useful to link together the two strands of a DNA clamp. Upon targeting a ssDNA, the conformational flexibility allows better stacking of the linker to the underlying non-planar base triplet in the formed triplex. This type of triplexes has a substantially higher thermal melting temperature which can be further improved by inserting locked nucleic acids (LNAs) in the Hoogsteen part of the clamp. An extremely high sensitivity to mismatches is observed in an octamer triplex when placed in the middle of the sequence.

引用

页码：1538 / 1547

页数：10

共 50 条

[1] Triplex-Stabilizing Properties of Parallel Clamps Carrying LNA Derivatives at the Hoogsteen Strand
Alvira, Margarita
Eritja, Ramon
[J]. CHEMISTRY & BIODIVERSITY, 2010, 7 (02) : 376 - 382
[2] A molecular beacon strategy for real-time monitoring of triplex DNA formation kinetics
Antony, T
Subramaniam, V
[J]. ANTISENSE & NUCLEIC ACID DRUG DEVELOPMENT, 2002, 12 (03): : 145 - 154
[3] A molecular beacon strategy for the thermodynamic characterization of triplex DNA: Triplex formation at the promoter region of cyclin D1
Antony, T
Thomas, T
Sigal, LH
Shirahata, A
Thomas, TJ
[J]. BIOCHEMISTRY, 2001, 40 (31) : 9387 - 9395
[4] Usefulness of Peptide Nucleic Acid (PNA)-Clamp Smart Amplification Process Version 2 (SmartAmp2) for Clinical Diagnosis of KRAS Codon 12 Mutations in Lung Adenocarcinoma Comparison of PNA-Clamp SmartAmp2 and PCR-Related Methods
Araki, Takuya
Shimizu, Kimihiro
Nakamura, Katsunori
Nakamura, Tomonori
Mitani, Yasumasa
Obayashi, Kyoko
Fujita, Yukiyoshi
Kakegawa, Seiichi
Miyamae, Yohei
Kaira, Kyoichi
Ishidao, Takefumi
Lezhava, Alexander
Hayashizaki, Yoshihide
Takeyoshi, Izumi
Yamamoto, Koujirou
[J]. JOURNAL OF MOLECULAR DIAGNOSTICS, 2010, 12 (01) : 118 - 124
[5] New Approaches Toward Recognition of Nucleic Acid Triple Helices
Arya, Dev P.
[J]. ACCOUNTS OF CHEMICAL RESEARCH, 2011, 44 (02) : 134 - 146
[6] Pyrimidine motif triplexes containing polypurine RNA or DNA with oligo 2′-O-methyl or DNA triplex forming oligonucleotides
Beban, M
Miller, PS
[J]. BIOCHIMICA ET BIOPHYSICA ACTA-GENE STRUCTURE AND EXPRESSION, 2000, 1492 (01): : 155 - 162
[7] Naphthalene- and perylene-based linkers for the stabilization of hairpin triplexes
Bevers, S
Schutte, S
McLaughlin, LW
[J]. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2000, 122 (25) : 5905 - 5915
[8] The First Postsynthetic 5′-5′ Intercalators in Triplex DNA - Solid-Phase Postsynthetic Sonogashira Reaction and Homocouplings on Arylacetylenes
Bomholt, Niels
Filichev, Vyacheslav V.
Pedersen, Erik B.
[J]. HELVETICA CHIMICA ACTA, 2009, 92 (04) : 716 - 730
[9] Bondensgaard K, 2000, CHEM-EUR J, V6, P2687, DOI 10.1002/1521-3765(20000804)6:15<2687::AID-CHEM2687>3.0.CO
[10] 2-U

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