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通过不同合成连接体单交联的DNA双链体的核磁共振研究。

NMR studies of DNA duplexes singly cross-linked by different synthetic linkers.

作者信息

Altmann S, Labhardt A M, Bur D, Lehmann C, Bannwarth W, Billeter M, Wüthrich K, Leupin W

机构信息

F. Hoffmann-La Roche Ltd, Pharma Division, Basel, Switzerland.

出版信息

Nucleic Acids Res. 1995 Dec 11;23(23):4827-35. doi: 10.1093/nar/23.23.4827.

DOI:10.1093/nar/23.23.4827
PMID:8532525
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC307471/
Abstract

Molecular modelling studies resulted in the design of a variety of non-nucleotidic covalent linkers to bridge the 3'-end of the (+)-strand and the 5'-end of the (-)-strand in DNA duplexes. Three of these linkers were synthesized and used to prepare singly cross-linked duplexes d(GTGGAATTC)-linker-d(GAATTCCAC). Linker I is an assembly of a propylene-, a phosphate- and a second propylene-group and is thought to mimic the backbone of two nucleotides. Linkers II and III consist of five and six ethyleneglycol units, respectively. The melting temperatures of the cross-linked duplexes are 65 degrees C for I and 73 degrees C for II and III, as compared with 36 degrees C for the corresponding non-linked nonadeoxynucleotide duplex. The three cross-linked duplexes were structurally characterized by nuclear magnetic resonance spectroscopy. The 1H and 31P resonance assignments in the DNA stem were obtained using standard methods. For the resonance assignment of the linker protons, two-dimensional 1H-31P heteronuclear COSY and two-quantum-experiments were used. Distance geometry calculations with NOE-derived distance constraints were performed and the resulting structures were energy-minimized. In duplex I, the nucleotides flanking the propylene-phosphate-propylene-linker do not form a Watson-Crick base pair, whereas in duplexes II and III the entire DNA stem is in a B-type double helix conformation.

摘要

分子建模研究促成了多种非核苷酸共价连接体的设计，用于连接DNA双链体中（+）链的3'端和（-）链的5'端。合成了其中三种连接体，并用于制备单链交联双链体d(GTGGAATTC)-连接体-d(GAATTCCAC)。连接体I由一个丙烯基、一个磷酸基和另一个丙烯基组成，被认为可模拟两个核苷酸的骨架。连接体II和III分别由五个和六个乙二醇单元组成。交联双链体的解链温度，连接体I为65℃，连接体II和III为73℃，而相应的未连接的十九聚脱氧核苷酸双链体为36℃。通过核磁共振光谱对这三种交联双链体进行了结构表征。使用标准方法获得了DNA茎部的1H和31P共振归属。对于连接体质子的共振归属，使用了二维1H-31P异核COSY和双量子实验。利用源自NOE的距离约束进行了距离几何计算，并对所得结构进行了能量最小化。在双链体I中，丙烯-磷酸-丙烯连接体两侧的核苷酸不形成沃森-克里克碱基对，而在双链体II和III中，整个DNA茎处于B型双螺旋构象。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/d9ce3f9a51dc/nar00023-0100-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/15db4e0b6f70/nar00023-0097-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/a4d857435bb1/nar00023-0098-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/bd0bd8f9d42f/nar00023-0099-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/d9ce3f9a51dc/nar00023-0100-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/15db4e0b6f70/nar00023-0097-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/a4d857435bb1/nar00023-0098-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/bd0bd8f9d42f/nar00023-0099-a.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/577d/307471/d9ce3f9a51dc/nar00023-0100-a.jpg

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Biopolymers. 1993 Dec;33(12):1765-77. doi: 10.1002/bip.360331203.
2
The solution structure of the hairpin formed by d(TCTCTC-TTT-GAGAGA).由d(TCTCTC-TTT-GAGAGA)形成的发夹结构的溶液结构
Biochemistry. 1994 Jun 14;33(23):7315-25. doi: 10.1021/bi00189a037.
3
Design and synthesis of RNA miniduplexes via a synthetic linker approach.
Nucleic Acids Res. 2017 Jun 2;45(10):e92. doi: 10.1093/nar/gkx122.
4
Characterization of Interstrand DNA-DNA Cross-Links Using the α-Hemolysin Protein Nanopore.使用α-溶血素蛋白纳米孔对链间DNA-DNA交联进行表征
ACS Nano. 2015 Dec 22;9(12):11812-9. doi: 10.1021/acsnano.5b03923. Epub 2015 Nov 18.
5
A simple, high-yield synthesis of DNA duplexes containing a covalent, thermally cleavable interstrand cross-link at a defined location.一种在特定位置含有共价、热可裂解链间交联的DNA双链体的简单、高产率合成方法。
Angew Chem Int Ed Engl. 2015 Jun 22;54(26):7666-9. doi: 10.1002/anie.201502566. Epub 2015 May 12.
6
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Nucleic Acids Res. 2014 Jun;42(11):7409-20. doi: 10.1093/nar/gku314. Epub 2014 May 29.
7
Synthesis and evaluation of new spacers for use as dsDNA end-caps.新型 dsDNA 端帽间隔物的合成与评价。
Bioconjug Chem. 2010 Aug 18;21(8):1545-53. doi: 10.1021/bc100202y.
8
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9
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4
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5
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6
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Biochemistry. 1983 Dec 6;22(25):5943-51. doi: 10.1021/bi00294a038.
7
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Biochem Biophys Res Commun. 1983 Dec 16;117(2):479-85. doi: 10.1016/0006-291x(83)91225-1.
8
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J Mol Biol. 1983 Dec 15;171(3):319-36. doi: 10.1016/0022-2836(83)90096-7.
9
Assignment of the 31P and 1H resonances in oligonucleotides by two-dimensional NMR spectroscopy.通过二维核磁共振光谱法对寡核苷酸中磷-31和氢-1共振进行归属
FEBS Lett. 1986 Nov 10;208(1):94-8. doi: 10.1016/0014-5793(86)81539-3.
10
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Eur J Biochem. 1987 Jul 1;166(1):215-20. doi: 10.1111/j.1432-1033.1987.tb13504.x.