一种在高盐条件下含有B-Z连接的合成DNA寡聚物的初步光谱表征。
Preliminary spectroscopic characterization of a synthetic DNA oligomer containing a B-Z junction at high salt.
作者信息
Sheardy R D
机构信息
Department of Chemistry, Pennsylvania State University, Hazleton 18201.
出版信息
Nucleic Acids Res. 1988 Feb 11;16(3):1153-67. doi: 10.1093/nar/16.3.1153.
Abstract
It is well known that the local conformation of a segment of DNA is dependent upon both the sequence of the segment and the conditions under which the DNA is prepared. In extreme cases, the DNA may contain regions of both right and left-handed conformations, mandating the existence of a conformational junction between the two. These B-Z junctions have been observed in plasmids but, to date, no model systems have been characterized to determine the molecular nature of these junctions. Preliminary CD, UV, and NMR studies on such a model are presented here. A 16 base pair oligonucleotide, containing a potential B-Z junction, has been synthesized and characterized by the above techniques. The results suggest that this molecule contains both right and left-handed conformations under condition of high salt, and thus a B-Z junction.
摘要
众所周知，一段DNA的局部构象取决于该片段的序列以及制备DNA时的条件。在极端情况下，DNA可能同时包含右手和左手构象区域，这就要求两者之间存在一个构象连接点。这些B-Z连接点已在质粒中被观察到，但迄今为止，尚未有用于确定这些连接点分子性质的模型系统得到表征。本文展示了对此类模型的初步圆二色光谱（CD）、紫外（UV）和核磁共振（NMR）研究。一个含有潜在B-Z连接点的16碱基对寡核苷酸已被合成，并通过上述技术进行了表征。结果表明，该分子在高盐条件下同时包含右手和左手构象，因此存在一个B-Z连接点。
相似文献
1
Preliminary spectroscopic characterization of a synthetic DNA oligomer containing a B-Z junction at high salt.一种在高盐条件下含有B-Z连接的合成DNA寡聚物的初步光谱表征。
Nucleic Acids Res. 1988 Feb 11;16(3):1153-67. doi: 10.1093/nar/16.3.1153.
2
Temperature-dependent CD and NMR studies on a synthetic oligonucleotide containing a B-Z junction at high salt.在高盐条件下对含有B-Z连接的合成寡核苷酸进行的温度依赖性圆二色光谱和核磁共振研究。
Biochemistry. 1989 Jan 24;28(2):720-5. doi: 10.1021/bi00428a046.
3
L-nucleotides and 8-methylguanine of d(C1m8G2C3G4C5LG6LC7G8C9G10)2 act cooperatively to promote a left-handed helix under physiological salt conditions.d(C1m8G2C3G4C5LG6LC7G8C9G10)2 的 L-核苷酸和 8-甲基鸟嘌呤在生理盐条件下协同作用以促进左手螺旋的形成。
Nucleic Acids Res. 2003 Dec 1;31(23):6986-95. doi: 10.1093/nar/gkg893.
4
NMR, CD and IR spectroscopies of a tridecanucleotide containing a no-base residue: coexistence of B and Z conformations.含有无碱基残基的十三聚核苷酸的核磁共振、圆二色光谱和红外光谱：B构象和Z构象的共存
Nucleic Acids Res. 1986 Jan 24;14(2):1107-26. doi: 10.1093/nar/14.2.1107.
5
Z-DNA: vacuum ultraviolet circular dichroism.Z型DNA：真空紫外圆二色性
Proc Natl Acad Sci U S A. 1981 Aug;78(8):4801-4. doi: 10.1073/pnas.78.8.4801.
6
Drug binding to a DNA BZ molecule: analysis by chemical footprinting.药物与DNA BZ分子的结合：化学足迹分析
Biochemistry. 1991 Dec 24;30(51):11735-41. doi: 10.1021/bi00115a001.
7
Sequence effects on the relative thermodynamic stabilities of B-Z junction-forming DNA oligomeric duplexes.序列对形成B-Z连接的DNA寡聚双链体相对热力学稳定性的影响。
Biophys J. 1997 Dec;73(6):3135-41. doi: 10.1016/S0006-3495(97)78339-5.
8
Sequence dependence of the free energy of B-Z junction formation in deoxyoligonucleotides.脱氧寡核苷酸中B-Z结形成自由能的序列依赖性。
J Mol Biol. 1993 May 20;231(2):475-88. doi: 10.1006/jmbi.1993.1295.
9
On the metastability of left-handed DNA motifs.关于左手DNA基序的亚稳定性
Biochemistry. 1993 Mar 2;32(8):2116-9. doi: 10.1021/bi00059a033.
10
Right- and left-handed (Z) helical conformations of the hairpin d(C-G)5T4(C-G)5 monomer and dimer.发夹状d(C-G)5T4(C-G)5单体和二聚体的右手和左手（Z）螺旋构象。
Biochemistry. 1985 Oct 8;24(21):5698-702. doi: 10.1021/bi00342a002.
引用本文的文献
1
Characterization of Z-DNA Using Circular Dichroism.用圆二色性研究 Z-DNA 的结构特征。
Methods Mol Biol. 2023;2651:33-51. doi: 10.1007/978-1-0716-3084-6_2.
2
Enthalpy of the B-to-Z conformational transition of a DNA oligonucleotide determined by isothermal titration calorimetry.通过等温滴定量热法测定DNA寡核苷酸B-Z构象转变的焓。
Biophys J. 2006 Nov 1;91(9):3383-9. doi: 10.1529/biophysj.106.084145. Epub 2006 Aug 18.
3
Sequence effects on the relative thermodynamic stabilities of B-Z junction-forming DNA oligomeric duplexes.序列对形成B-Z连接的DNA寡聚双链体相对热力学稳定性的影响。
Biophys J. 1997 Dec;73(6):3135-41. doi: 10.1016/S0006-3495(97)78339-5.
4
Conformational properties of Z-forming DNA oligomers bearing terminal unpaired bases.带有末端未配对碱基的Z型DNA寡聚物的构象性质。
Biophys J. 1996 Dec;71(6):3361-9. doi: 10.1016/S0006-3495(96)79529-2.
5
Z-DNA binding protein from chicken blood nuclei.来自鸡血细胞核的Z-DNA结合蛋白。
Proc Natl Acad Sci U S A. 1993 Apr 15;90(8):3339-42. doi: 10.1073/pnas.90.8.3339.
6
A method to identify and characterize Z-DNA binding proteins using a linear oligodeoxynucleotide.一种使用线性寡脱氧核苷酸鉴定和表征Z-DNA结合蛋白的方法。
Nucleic Acids Res. 1993 Jun 11;21(11):2669-72. doi: 10.1093/nar/21.11.2669.
7
Strong structural effect of the position of a single acetylaminofluorene adduct within a mutation hot spot.单个乙酰氨基芴加合物在突变热点内位置的强大结构效应。
Nucleic Acids Res. 1989 Dec 11;17(23):9531-41. doi: 10.1093/nar/17.23.9531.
8
High-resolution NMR studies of chimeric DNA-RNA-DNA duplexes, heteronomous base pairing, and continuous base stacking at junctions.嵌合DNA-RNA-DNA双链体、异源碱基配对以及连接处连续碱基堆积的高分辨率核磁共振研究。
Biochemistry. 1991 May 28;30(21):5248-57. doi: 10.1021/bi00235a019.
本文引用的文献
1
Spectroscopic studies of (m5dC-dG)3: thermal stability of B- and Z-forms.（m5dC-dG）3的光谱研究：B型和Z型的热稳定性
Nucleic Acids Res. 1983 Jul 11;11(13):4453-66. doi: 10.1093/nar/11.13.4453.
2
B to Z transition of double-stranded poly[deoxyguanylyl(3'-5')-5-methyldeoxycytidine] in solution by phosphorus-31 and carbon-13 nuclear magnetic resonance spectroscopy.通过磷-31和碳-13核磁共振光谱法研究双链聚[脱氧鸟苷酰（3'-5'）-5-甲基脱氧胞苷]在溶液中的B到Z转变
Biochemistry. 1983 Apr 26;22(9):2136-42. doi: 10.1021/bi00278a013.
3
Polymer support oligonucleotide synthesis XVIII: use of beta-cyanoethyl-N,N-dialkylamino-/N-morpholino phosphoramidite of deoxynucleosides for the synthesis of DNA fragments simplifying deprotection and isolation of the final product.聚合物载体寡核苷酸合成 XVIII：脱氧核苷的β-氰基乙基-N，N-二烷基氨基-/N-吗啉代亚磷酰胺用于 DNA 片段合成，简化最终产物的脱保护和分离
Nucleic Acids Res. 1984 Jun 11;12(11):4539-57. doi: 10.1093/nar/12.11.4539.
4
BAL 31 nuclease as a probe in concentrated salt for the B-Z DNA junction.BAL 31核酸酶作为在高盐环境中探测B-Z DNA连接区的探针。
Nucleic Acids Res. 1983 Jun 11;11(11):3811-22. doi: 10.1093/nar/11.11.3811.
5
Left-handed Z-DNA is induced by supercoiling in physiological ionic conditions.在生理离子条件下，超螺旋可诱导左手Z-DNA的形成。
Nature. 1982 Sep 23;299(5881):312-6. doi: 10.1038/299312a0.
6
7
Effects of methylation on a synthetic polynucleotide: the B--Z transition in poly(dG-m5dC).poly(dG-m5dC).甲基化对合成多核苷酸的影响：聚（dG-m5dC）·聚（dG-m5dC）中的B-Z转变
Proc Natl Acad Sci U S A. 1981 Mar;78(3):1619-23. doi: 10.1073/pnas.78.3.1619.
8
Restriction endonucleases can be used to study B-Z junctions in supercoiled DNA.限制性内切核酸酶可用于研究超螺旋DNA中的B-Z连接。
Proc Natl Acad Sci U S A. 1984 Sep;81(18):5714-8. doi: 10.1073/pnas.81.18.5714.
9
Chemical probes of DNA conformation: detection of Z-DNA at nucleotide resolution.DNA构象的化学探针：核苷酸分辨率下Z-DNA的检测
Cell. 1985 Oct;42(3):713-24. doi: 10.1016/0092-8674(85)90268-5.
10
NMR, CD and IR spectroscopies of a tridecanucleotide containing a no-base residue: coexistence of B and Z conformations.含有无碱基残基的十三聚核苷酸的核磁共振、圆二色光谱和红外光谱：B构象和Z构象的共存
Nucleic Acids Res. 1986 Jan 24;14(2):1107-26. doi: 10.1093/nar/14.2.1107.
Zotero 插件