细菌核苷酸切除修复中损伤感应复合体的结构模型。
A structural model for the damage-sensing complex in bacterial nucleotide excision repair.
作者信息
Pakotiprapha Danaya, Liu Yi, Verdine Gregory L, Jeruzalmi David
机构信息
Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA.
出版信息
J Biol Chem. 2009 May 8;284(19):12837-44. doi: 10.1074/jbc.M900571200. Epub 2009 Mar 13.
Abstract
Nucleotide excision repair is distinguished from other DNA repair pathways by its ability to process a wide range of structurally unrelated DNA lesions. In bacteria, damage recognition is achieved by the UvrA.UvrB ensemble. Here, we report the structure of the complex between the interaction domains of UvrA and UvrB. These domains are necessary and sufficient for full-length UvrA and UvrB to associate and thereby form the DNA damage-sensing complex of bacterial nucleotide excision repair. The crystal structure and accompanying biochemical analyses suggest a model for the complete damage-sensing complex.
摘要
核苷酸切除修复与其他DNA修复途径的区别在于，它能够处理多种结构不相关的DNA损伤。在细菌中，损伤识别是由UvrA-UvrB复合体实现的。在此，我们报道了UvrA和UvrB相互作用结构域之间复合物的结构。这些结构域对于全长UvrA和UvrB的结合是必要且充分的，从而形成细菌核苷酸切除修复的DNA损伤传感复合物。晶体结构及相关生化分析提出了一个完整损伤传感复合物的模型。
相似文献
1
A structural model for the damage-sensing complex in bacterial nucleotide excision repair.
J Biol Chem. 2009 May 8;284(19):12837-44. doi: 10.1074/jbc.M900571200. Epub 2009 Mar 13.
2
Crystal structure of Bacillus stearothermophilus UvrA provides insight into ATP-modulated dimerization, UvrB interaction, and DNA binding.
Mol Cell. 2008 Jan 18;29(1):122-33. doi: 10.1016/j.molcel.2007.10.026. Epub 2007 Dec 27.
3
Structure and mechanism of the UvrA-UvrB DNA damage sensor.
Nat Struct Mol Biol. 2012 Feb 5;19(3):291-8. doi: 10.1038/nsmb.2240.
4
Interactions between UvrA and UvrB: the role of UvrB's domain 2 in nucleotide excision repair.
EMBO J. 2004 Jul 7;23(13):2498-509. doi: 10.1038/sj.emboj.7600263. Epub 2004 Jun 10.
5
Real-time investigation of the roles of ATP hydrolysis by UvrA and UvrB during DNA damage recognition in nucleotide excision repair.
DNA Repair (Amst). 2021 Jan;97:103024. doi: 10.1016/j.dnarep.2020.103024. Epub 2020 Nov 25.
6
Structure of UvrA nucleotide excision repair protein in complex with modified DNA.
Nat Struct Mol Biol. 2011 Feb;18(2):191-7. doi: 10.1038/nsmb.1973. Epub 2011 Jan 16.
7
Role of the two ATPase domains of Escherichia coli UvrA in binding non-bulky DNA lesions and interaction with UvrB.
DNA Repair (Amst). 2010 Nov 10;9(11):1176-86. doi: 10.1016/j.dnarep.2010.08.008. Epub 2010 Sep 22.
8
Crystal structure of Thermus thermophilus HB8 UvrB protein, a key enzyme of nucleotide excision repair.
J Biochem. 1999 Dec;126(6):986-90. doi: 10.1093/oxfordjournals.jbchem.a022566.
9
Dynamics of the UvrABC nucleotide excision repair proteins analyzed by fluorescence resonance energy transfer.
Biochemistry. 2007 Aug 7;46(31):9080-8. doi: 10.1021/bi7002235. Epub 2007 Jul 14.
10
Cooperative damage recognition by UvrA and UvrB: identification of UvrA residues that mediate DNA binding.
DNA Repair (Amst). 2008 Mar 1;7(3):392-404. doi: 10.1016/j.dnarep.2007.11.013. Epub 2008 Jan 11.
引用本文的文献
1
Mechanistic understanding of UvrA damage detection and lesion hand-off to UvrB in Nucleotide Excision Repair.
Nat Commun. 2025 Apr 10;16(1):3416. doi: 10.1038/s41467-025-58670-0.
2
The UvrA-like protein Ecm16 requires ATPase activity to render resistance against echinomycin.
Mol Microbiol. 2022 Jun;117(6):1434-1446. doi: 10.1111/mmi.14918. Epub 2022 May 30.
3
Crucial role and mechanism of transcription-coupled DNA repair in bacteria.
Nature. 2022 Apr;604(7904):152-159. doi: 10.1038/s41586-022-04530-6. Epub 2022 Mar 30.
4
Single molecule iSCAT imaging reveals a fast, energy efficient search mode for the DNA repair protein UvrA.
Nanoscale. 2022 Mar 31;14(13):5174-5184. doi: 10.1039/d1nr06913f.
5
Single-molecule studies of helicases and translocases in prokaryotic genome-maintenance pathways.
DNA Repair (Amst). 2021 Dec;108:103229. doi: 10.1016/j.dnarep.2021.103229. Epub 2021 Sep 20.
6
Structural basis for transcription complex disruption by the Mfd translocase.
Elife. 2021 Jan 22;10:e62117. doi: 10.7554/eLife.62117.
7
A combined structural and biochemical approach reveals translocation and stalling of UvrB on the DNA lesion as a mechanism of damage verification in bacterial nucleotide excision repair.
DNA Repair (Amst). 2020 Jan;85:102746. doi: 10.1016/j.dnarep.2019.102746. Epub 2019 Nov 6.
8
The ATPase mechanism of UvrA2 reveals the distinct roles of proximal and distal ATPase sites in nucleotide excision repair.
Nucleic Acids Res. 2019 May 7;47(8):4136-4152. doi: 10.1093/nar/gkz180.
9
Recruitment of UvrBC complexes to UV-induced damage in the absence of UvrA increases cell survival.
Nucleic Acids Res. 2018 Feb 16;46(3):1256-1265. doi: 10.1093/nar/gkx1244.
10
From Mfd to TRCF and Back Again-A Perspective on Bacterial Transcription-coupled Nucleotide Excision Repair.
Photochem Photobiol. 2017 Jan;93(1):268-279. doi: 10.1111/php.12661. Epub 2016 Dec 27.
本文引用的文献
1
Processing of X-ray diffraction data collected in oscillation mode.
Methods Enzymol. 1997;276:307-26. doi: 10.1016/S0076-6879(97)76066-X.
2
Phaser crystallographic software.
J Appl Crystallogr. 2007 Aug 1;40(Pt 4):658-674. doi: 10.1107/S0021889807021206. Epub 2007 Jul 13.
3
Searching protein structure databases with DaliLite v.3.
Bioinformatics. 2008 Dec 1;24(23):2780-1. doi: 10.1093/bioinformatics/btn507. Epub 2008 Sep 25.
4
Crystal structure of Bacillus stearothermophilus UvrA provides insight into ATP-modulated dimerization, UvrB interaction, and DNA binding.
Mol Cell. 2008 Jan 18;29(1):122-33. doi: 10.1016/j.molcel.2007.10.026. Epub 2007 Dec 27.
5
Version 1.2 of the Crystallography and NMR system.
Nat Protoc. 2007;2(11):2728-33. doi: 10.1038/nprot.2007.406.
6
Dynamics of the UvrABC nucleotide excision repair proteins analyzed by fluorescence resonance energy transfer.
Biochemistry. 2007 Aug 7;46(31):9080-8. doi: 10.1021/bi7002235. Epub 2007 Jul 14.
7
Oligomeric states of proteins determined by size-exclusion chromatography coupled with light scattering, absorbance, and refractive index detectors.
Methods Mol Biol. 2006;328:97-112. doi: 10.1385/1-59745-026-X:97.
8
Structural basis for DNA recognition and processing by UvrB.
Nat Struct Mol Biol. 2006 Apr;13(4):360-4. doi: 10.1038/nsmb1072. Epub 2006 Mar 12.
9
Structural basis for bacterial transcription-coupled DNA repair.
Cell. 2006 Feb 10;124(3):507-20. doi: 10.1016/j.cell.2005.11.045.
10
Prokaryotic nucleotide excision repair: the UvrABC system.
Chem Rev. 2006 Feb;106(2):233-52. doi: 10.1021/cr040471u.
Zotero 插件