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1
DNA rotational positioning in a regulatory nucleosome is determined by base sequence. An algorithm to model the preferred superhelix.调控核小体中DNA的旋转定位由碱基序列决定。一种用于模拟首选超螺旋的算法。
Nucleic Acids Res. 1990 Dec 11;18(23):6981-7. doi: 10.1093/nar/18.23.6981.
2
Structural features of a regulatory nucleosome.一个调控核小体的结构特征
J Mol Biol. 1990 Dec 20;216(4):975-90. doi: 10.1016/S0022-2836(99)80015-1.
3
Positioning and stability of nucleosomes on MMTV 3'LTR sequences.核小体在小鼠乳腺肿瘤病毒3'长末端重复序列上的定位与稳定性
J Mol Biol. 1998 Jan 23;275(3):427-41. doi: 10.1006/jmbi.1997.1464.
4
Histone hyperacetylation does not alter the positioning or stability of phased nucleosomes on the mouse mammary tumor virus long terminal repeat.组蛋白高度乙酰化不会改变小鼠乳腺肿瘤病毒长末端重复序列上相位核小体的定位或稳定性。
Biochemistry. 1991 Apr 9;30(14):3490-7. doi: 10.1021/bi00228a020.
5
Binding of NF1 to the MMTV promoter in nucleosomes: influence of rotational phasing, translational positioning and histone H1.核小体中NF1与MMTV启动子的结合：旋转相位、平移定位和组蛋白H1的影响
Nucleic Acids Res. 1997 Sep 15;25(18):3733-42. doi: 10.1093/nar/25.18.3733.
6
The mouse mammary tumour virus promoter positioned on a tetramer of histones H3 and H4 binds nuclear factor 1 and OTF1.位于组蛋白H3和H4四聚体上的小鼠乳腺肿瘤病毒启动子与核因子1和OTF1结合。
J Mol Biol. 1998 May 15;278(4):725-39. doi: 10.1006/jmbi.1998.1718.
7
Nucleosomes reconstituted in vitro on mouse mammary tumor virus B region DNA occupy multiple translational and rotational frames.在小鼠乳腺肿瘤病毒B区DNA上体外重构的核小体占据多个翻译和旋转框架。
Biochemistry. 1995 Sep 26;34(38):12470-80. doi: 10.1021/bi00038a046.
8
DNA curvature of the tobacco GRS repetitive sequence family and its relation to nucleosome positioning.烟草GRS重复序列家族的DNA曲率及其与核小体定位的关系。
J Biomol Struct Dyn. 1995 Apr;12(5):1103-19. doi: 10.1080/07391102.1995.10508800.
9
The structure of DNA in the nucleosome core.核小体核心中DNA的结构。
Nature. 2003 May 8;423(6936):145-50. doi: 10.1038/nature01595.
10
In vivo binding of proteins to stably integrated MMTV DNA in murine cell lines: occupancy of NFI and OTF1 binding sites in the absence and presence of glucocorticoids.蛋白质与小鼠细胞系中稳定整合的MMTV DNA的体内结合：在存在和不存在糖皮质激素的情况下NFI和OTF1结合位点的占有率
Cell Mol Biol Res. 1994;40(7-8):643-52.

引用本文的文献

1
Erk signaling and chromatin remodeling in MMTV promoter activation by progestins.孕激素激活MMTV启动子时的细胞外信号调节激酶信号传导与染色质重塑
Nucl Recept Signal. 2009 Oct 2;7:e008. doi: 10.1621/nrs.07008.
2
A translational signature for nucleosome positioning in vivo.体内核小体定位的翻译特征
Nucleic Acids Res. 2009 Sep;37(16):5309-21. doi: 10.1093/nar/gkp574. Epub 2009 Jul 13.
3
Assembly of MMTV promoter minichromosomes with positioned nucleosomes precludes NF1 access but not restriction enzyme cleavage.具有定位核小体的MMTV启动子微型染色体组装可阻止NF1进入，但不影响限制酶切割。
Nucleic Acids Res. 1998 Aug 15;26(16):3657-66. doi: 10.1093/nar/26.16.3657.
4
Binding of NF1 to the MMTV promoter in nucleosomes: influence of rotational phasing, translational positioning and histone H1.核小体中NF1与MMTV启动子的结合：旋转相位、平移定位和组蛋白H1的影响
Nucleic Acids Res. 1997 Sep 15;25(18):3733-42. doi: 10.1093/nar/25.18.3733.
5
Chromatin structure of the MMTV promoter and its changes during hormonal induction.MMTV启动子的染色质结构及其在激素诱导过程中的变化。
Cell Mol Neurobiol. 1996 Apr;16(2):85-101. doi: 10.1007/BF02088169.
6
Identification of a DNA structural motif that includes the binding sites for Sp1, p53 and GA-binding protein.一种包含Sp1、p53和GA结合蛋白结合位点的DNA结构基序的鉴定。
Nucleic Acids Res. 1993 Mar 25;21(6):1439-47. doi: 10.1093/nar/21.6.1439.

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Structure of the nucleosome core particle at 7 A resolution.7埃分辨率下核小体核心颗粒的结构。
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Reversible and persistent changes in chromatin structure accompany activation of a glucocorticoid-dependent enhancer element.染色质结构的可逆性和持续性变化伴随着糖皮质激素依赖性增强子元件的激活。
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Structural analysis of a triple complex between the histone octamer, a Xenopus gene for 5S RNA and transcription factor IIIA.组蛋白八聚体、非洲爪蟾5S RNA基因与转录因子IIIA之间三元复合物的结构分析
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DNA bending and its relation to nucleosome positioning.DNA弯曲及其与核小体定位的关系。
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Selected topics in chromatin structure.染色质结构的选定主题。
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Sequence periodicities in chicken nucleosome core DNA.鸡核小体核心DNA中的序列周期性
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9
Sequence-specific positioning of core histones on an 860 base-pair DNA. Experiment and theory.核心组蛋白在一段860个碱基对的DNA上的序列特异性定位。实验与理论
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调控核小体中DNA的旋转定位由碱基序列决定。一种用于模拟首选超螺旋的算法。

DNA rotational positioning in a regulatory nucleosome is determined by base sequence. An algorithm to model the preferred superhelix.

作者信息

Piña B, Truss M, Ohlenbusch H, Postma J, Beato M

机构信息

Institut für Molekularbiologie und Tumorforschung, Marburg, FRG.

出版信息

Nucleic Acids Res. 1990 Dec 11;18(23):6981-7. doi: 10.1093/nar/18.23.6981.

DOI:10.1093/nar/18.23.6981
PMID:2175885
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC332759/
Abstract

MMTV-LTR sequences -190/-45 position a histone octamer both in vivo and in vitro. Experimental evidence suggested that nucleosome rotational positioning is determined by the DNA sequence itself. We developed an algorithm that is able to predict the most favorable path of a given DNA sequence over a histone octamer, based on rotational preferences of different dinucleotides. Our analysis shows that these preferences are sufficient for explaining the observed rotational positioning of the MMTV-LTR nucleosome, at one base pair accuracy level. Computer-generated 3-D models of the experimentally calculated and predicted MMTV-LTR nucleosome show that the predicted orientation is fully compatible with the currently available data in terms of accessibility of relevant sequences to regulatory proteins.

摘要

MMTV-LTR序列在-190/-45位置在体内和体外定位一个组蛋白八聚体。实验证据表明核小体的旋转定位由DNA序列本身决定。我们开发了一种算法，该算法能够根据不同二核苷酸的旋转偏好预测给定DNA序列在组蛋白八聚体上最有利的路径。我们的分析表明，这些偏好足以在一个碱基对的精度水平上解释观察到的MMTV-LTR核小体的旋转定位。实验计算和预测的MMTV-LTR核小体的计算机生成三维模型表明，就相关序列对调节蛋白的可及性而言，预测的方向与目前可用的数据完全兼容。