Drep2 CIDE结构域的纯化、结晶及初步X射线晶体学研究。
Purification, crystallization and preliminary X-ray crystallographic studies of Drep2 CIDE domain.
作者信息
Lee Seung Mi, Park Hyun Ho
机构信息
Department of Biochemistry, Yeungnam University, Gyeongsan, Republic of Korea.
出版信息
Acta Crystallogr F Struct Biol Commun. 2014 Oct;70(Pt 10):1414-7. doi: 10.1107/S2053230X14019165. Epub 2014 Sep 25.
Abstract
Drep2 is a novel nuclease from the fruit fly that might have a similar function in apoptosis to DFF40 and DFF45, which are primary players in apoptotic DNA fragmentation. Drep2 contains a conserved CIDE domain of ∼90 amino-acid residues that is involved in protein-protein interaction. In this study, the Drep2 CIDE domain was purified and crystallized by the hanging-drop vapour-diffusion method. X-ray diffraction data were then collected to a resolution of 2.3 Å. The crystals were found to belong to the orthorhombic space group P212121, with unit-cell parameters a = 50.28, b = 88.70, c = 113.37 Å.
摘要
Drep2是一种来自果蝇的新型核酸酶，在细胞凋亡中可能具有与DFF40和DFF45类似的功能，而DFF40和DFF45是细胞凋亡过程中DNA片段化的主要参与者。Drep2包含一个约90个氨基酸残基的保守CIDE结构域，该结构域参与蛋白质-蛋白质相互作用。在本研究中，通过悬滴气相扩散法对Drep2 CIDE结构域进行了纯化和结晶。随后收集了分辨率为2.3 Å的X射线衍射数据。发现晶体属于正交空间群P212121，晶胞参数a = 50.28，b = 88.70，c = 113.37 Å。
相似文献
1
Purification, crystallization and preliminary X-ray crystallographic studies of Drep2 CIDE domain.Drep2 CIDE结构域的纯化、结晶及初步X射线晶体学研究。
Acta Crystallogr F Struct Biol Commun. 2014 Oct;70(Pt 10):1414-7. doi: 10.1107/S2053230X14019165. Epub 2014 Sep 25.
2
Crystallization and preliminary X-ray crystallographic studies of the CIDE-domain complex between Drep2 and Drep3 from Drosophila melanogaster.果蝇Drep2与Drep3之间CIDE结构域复合物的结晶及初步X射线晶体学研究。
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Apr 1;67(Pt 4):457-60. doi: 10.1107/S1744309111003113. Epub 2011 Mar 25.
3
Filament-like DREP4 CIDE domain: characterization and preliminary X-ray crystallographic studies.丝状DREP4 CIDE结构域：表征与初步X射线晶体学研究。
Acta Crystallogr F Struct Biol Commun. 2017 Aug 1;73(Pt 8):481-485. doi: 10.1107/S2053230X1701069X. Epub 2017 Jul 26.
4
Crystallization and preliminary X-ray crystallographic studies of the CIDE-N domain of CIDE-3.CIDE-3的CIDE-N结构域的结晶及初步X射线晶体学研究
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Nov;69(Pt 11):1260-3. doi: 10.1107/S1744309113026444. Epub 2013 Oct 30.
5
Dual apoptotic DNA fragmentation system in the fly: Drep2 is a novel nuclease of which activity is inhibited by Drep3.果蝇中的双重凋亡 DNA 片段化系统：Drep2 是一种新型核酸内切酶，其活性受 Drep3 抑制。
FEBS Lett. 2012 Sep 21;586(19):3085-9. doi: 10.1016/j.febslet.2012.07.056. Epub 2012 Jul 28.
6
Crystal structure and mutation analysis revealed that DREP2 CIDE forms a filament-like structure with features differing from those of DREP4 CIDE.晶体结构和突变分析表明，DREP2 CIDE 形成了一种类似纤维的结构，其特征与 DREP4 CIDE 不同。
Sci Rep. 2018 Dec 13;8(1):17810. doi: 10.1038/s41598-018-36253-y.
7
A putative role of Drep1 in apoptotic DNA fragmentation system in fly is mediated by direct interaction with Drep2 and Drep4.Drep1 在果蝇凋亡 DNA 片段化系统中的假定作用是通过与 Drep2 和 Drep4 的直接相互作用介导的。
Apoptosis. 2013 Apr;18(4):385-92. doi: 10.1007/s10495-013-0815-9.
8
General interaction mode of CIDE:CIDE complex revealed by a mutation study of the Drep2 CIDE domain.通过对 Drep2 CIDE 结构域突变的研究揭示 CIDE:CIDE 复合物的一般相互作用模式。
FEBS Lett. 2013 Apr 2;587(7):854-9. doi: 10.1016/j.febslet.2013.02.031. Epub 2013 Feb 26.
9
Interaction mode of CIDE family proteins in fly: DREP1 and DREP3 acidic surfaces interact with DREP2 and DREP4 basic surfaces.果蝇中 CIDE 家族蛋白的相互作用模式：DREP1 和 DREP3 的酸性表面与 DREP2 和 DREP4 的碱性表面相互作用。
PLoS One. 2017 Dec 14;12(12):e0189819. doi: 10.1371/journal.pone.0189819. eCollection 2017.
10
Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Zucchini from Drosophila melanogaster.果蝇中Zucchini蛋白的表达、纯化、结晶及初步X射线晶体学分析。
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 Nov 1;68(Pt 11):1346-50. doi: 10.1107/S1744309112038936. Epub 2012 Oct 30.
引用本文的文献
1
CIDE domains form functionally important higher-order assemblies for DNA fragmentation.CIDE 结构域形成功能重要的 DNA 片段化高阶组装体。
Proc Natl Acad Sci U S A. 2017 Jul 11;114(28):7361-7366. doi: 10.1073/pnas.1705949114. Epub 2017 Jun 26.
本文引用的文献
1
Processing of X-ray diffraction data collected in oscillation mode.振荡模式下收集的X射线衍射数据的处理。
Methods Enzymol. 1997;276:307-26. doi: 10.1016/S0076-6879(97)76066-X.
2
In vitro analysis of the complete CIDE domain interactions of the Drep system in fly.在体外分析果蝇 Drep 系统完整 CIDE 结构域相互作用。
Apoptosis. 2014 Mar;19(3):428-35. doi: 10.1007/s10495-013-0941-4.
3
General interaction mode of CIDE:CIDE complex revealed by a mutation study of the Drep2 CIDE domain.通过对 Drep2 CIDE 结构域突变的研究揭示 CIDE:CIDE 复合物的一般相互作用模式。
FEBS Lett. 2013 Apr 2;587(7):854-9. doi: 10.1016/j.febslet.2013.02.031. Epub 2013 Feb 26.
4
Dual apoptotic DNA fragmentation system in the fly: Drep2 is a novel nuclease of which activity is inhibited by Drep3.果蝇中的双重凋亡 DNA 片段化系统：Drep2 是一种新型核酸内切酶，其活性受 Drep3 抑制。
FEBS Lett. 2012 Sep 21;586(19):3085-9. doi: 10.1016/j.febslet.2012.07.056. Epub 2012 Jul 28.
5
Structural features of caspase-activating complexes.半胱天冬酶激活复合物的结构特征。
Int J Mol Sci. 2012;13(4):4807-4818. doi: 10.3390/ijms13044807. Epub 2012 Apr 16.
6
Crystal structure of NALP3 protein pyrin domain (PYD) and its implications in inflammasome assembly.NALP3 蛋白的晶体结构 pyrin 域 (PYD) 及其在炎症小体组装中的意义。
J Biol Chem. 2011 Nov 11;286(45):39528-36. doi: 10.1074/jbc.M111.278812. Epub 2011 Aug 31.
7
REFMAC5 for the refinement of macromolecular crystal structures.用于大分子晶体结构精修的REFMAC5
Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):355-67. doi: 10.1107/S0907444911001314. Epub 2011 Mar 18.
8
Structural analyses of death domains and their interactions.死亡结构域及其相互作用的结构分析。
Apoptosis. 2011 Mar;16(3):209-20. doi: 10.1007/s10495-010-0571-z.
9
Which CIDE are you on? Apoptosis and energy metabolism.你研究的是哪种CIDE？细胞凋亡与能量代谢。
Mol Biosyst. 2011 Jan;7(1):91-100. doi: 10.1039/c0mb00099j. Epub 2010 Oct 22.
10
Fifty C-terminal amino acid residues are necessary for the chaperone activity of DFF45 but not for the inhibition of DFF40.DFF45的伴侣活性需要五十个C末端氨基酸残基，但对DFF40的抑制作用则不需要。
BMB Rep. 2009 Nov 30;42(11):713-8. doi: 10.5483/bmbrep.2009.42.11.713.
Zotero 插件