枯草芽孢杆菌中YqgQ蛋白的结构，一种保守的假定蛋白。
Structure of YqgQ protein from Bacillus subtilis, a conserved hypothetical protein.
作者信息
Lakshminarasimhan Damodharan, Eswaramoorthy Subramaniam, Burley Stephen K, Swaminathan Subramanyam
机构信息
Biology Department, Brookhaven National Laboratory, Upton, New York 11973, USA.
出版信息
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Jan 1;66(Pt 1):8-11. doi: 10.1107/S1744309109047009. Epub 2009 Dec 25.
Abstract
The crystal structure of the hypothetical protein YqgQ from Bacillus subtilis has been determined to 2.1 A resolution. The crystals belonged to space group P2(1), with unit-cell parameters a = 51.85, b = 41.25, c = 55.18 A, beta = 113.4 degrees , and contained three protein molecules in the asymmetric unit. The structure was determined by the single-wavelength anomalous dispersion method using selenium-labeled protein and was refined to a final R factor of 24.7% (R(free) = 28.0%). The protein molecule mainly comprises a three-helical bundle. Its putative function is inferred to be single-stranded nucleic acid binding based on sequence and structural homology.
摘要
已确定来自枯草芽孢杆菌的假设蛋白YqgQ的晶体结构，分辨率为2.1埃。晶体属于空间群P2(1)，晶胞参数a = 51.85、b = 41.25、c = 55.18埃，β = 113.4°，不对称单位中包含三个蛋白质分子。通过使用硒标记蛋白的单波长反常色散法确定了结构，并将其精修至最终R因子为24.7%（R(free)=28.0%）。该蛋白质分子主要由一个三螺旋束组成。基于序列和结构同源性，推测其假定功能为单链核酸结合。
相似文献
1
Structure of YqgQ protein from Bacillus subtilis, a conserved hypothetical protein.枯草芽孢杆菌中YqgQ蛋白的结构，一种保守的假定蛋白。
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Jan 1;66(Pt 1):8-11. doi: 10.1107/S1744309109047009. Epub 2009 Dec 25.
2
Crystallization and preliminary X-ray analysis of the ytxM gene product from Bacillus subtilis.枯草芽孢杆菌ytxM基因产物的结晶及初步X射线分析
Acta Crystallogr D Biol Crystallogr. 2002 Dec;58(Pt 12):2138-40. doi: 10.1107/s0907444902015512. Epub 2002 Nov 23.
3
Crystal structure of a putative HTH-type transcriptional regulator yxaF from Bacillus subtilis.来自枯草芽孢杆菌的假定HTH型转录调节因子yxaF的晶体结构。
Proteins. 2006 Jun 1;63(4):1087-91. doi: 10.1002/prot.20924.
4
Protein expression, crystallization and preliminary X-ray crystallographic studies of YjbK from Bacillus subtilis.枯草芽孢杆菌YjbK的蛋白质表达、结晶及初步X射线晶体学研究
Protein Pept Lett. 2005 Oct;12(7):663-4. doi: 10.2174/0929866054696208.
5
Preparation, crystallization and preliminary X-ray analysis of protein YtlP from Bacillus subtilis.枯草芽孢杆菌蛋白YtlP的制备、结晶及X射线初步分析
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Oct 1;62(Pt 10):967-9. doi: 10.1107/S174430910603199X. Epub 2006 Sep 19.
6
Crystallization and preliminary X-ray diffraction studies on the bicupin YwfC from Bacillus subtilis.枯草芽孢杆菌双杯形蛋白YwfC的结晶及初步X射线衍射研究。
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Dec 1;62(Pt 12):1259-62. doi: 10.1107/S1744309106047087. Epub 2006 Nov 30.
7
Structure of the hypothetical DUF1811-family protein GK0453 from Geobacillus kaustophilus HTA426.嗜热栖热放线菌HTA426中假定的DUF1811家族蛋白GK0453的结构
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Apr 1;69(Pt 4):342-5. doi: 10.1107/S1744309113003369. Epub 2013 Mar 28.
8
The crystal structure of YycH involved in the regulation of the essential YycFG two-component system in Bacillus subtilis reveals a novel tertiary structure.
Protein Sci. 2006 Apr;15(4):929-34. doi: 10.1110/ps.052064406.
9
Crystal structure of an uncommon cellulosome-related protein module from Ruminococcus flavefaciens that resembles papain-like cysteine peptidases.黄瘤假丝酵母来源的不常见纤维小体相关蛋白模块的晶体结构，类似于木瓜样半胱氨酸蛋白酶。
PLoS One. 2013;8(2):e56138. doi: 10.1371/journal.pone.0056138. Epub 2013 Feb 14.
10
Preparation, crystallization and preliminary X-ray analysis of YjcG protein from Bacillus subtilis.枯草芽孢杆菌YjcG蛋白的制备、结晶及初步X射线分析
Acta Crystallogr Sect F Struct Biol Cryst Commun. 2005 May 1;61(Pt 5):496-8. doi: 10.1107/S1744309105011012. Epub 2005 Apr 22.
引用本文的文献
1
Genes Contributing to the Unique Biology and Intrinsic Antibiotic Resistance of Enterococcus faecalis.导致粪肠球菌独特生物学特性和固有抗生素耐药性的基因。
mBio. 2020 Nov 24;11(6):e02962-20. doi: 10.1128/mBio.02962-20.
2
Network analysis of dynamically important residues in protein structures mediating ligand-binding conformational changes.介导配体结合构象变化的蛋白质结构中动态重要残基的网络分析。
Eur Biophys J. 2019 Sep;48(6):559-568. doi: 10.1007/s00249-019-01384-1. Epub 2019 Jul 4.
3
Effects of Low-Dose Amoxicillin on Staphylococcus aureus USA300 Biofilms.低剂量阿莫西林对金黄色葡萄球菌USA300生物被膜的影响。
Antimicrob Agents Chemother. 2016 Apr 22;60(5):2639-51. doi: 10.1128/AAC.02070-15. Print 2016 May.
4
Protein structure based prediction of catalytic residues.基于蛋白质结构的催化残基预测。
BMC Bioinformatics. 2013 Feb 22;14:63. doi: 10.1186/1471-2105-14-63.
5
Distinct co-evolution patterns of genes associated to DNA polymerase III DnaE and PolC.与 DNA 聚合酶 III DnaE 和 PolC 相关的基因的独特共同进化模式。
BMC Genomics. 2012 Feb 14;13:69. doi: 10.1186/1471-2164-13-69.
本文引用的文献
1
[27] Maximum-likelihood heavy-atom parameter refinement for multiple isomorphous replacement and multiwavelength anomalous diffraction methods.[27] 用于多同晶置换和多波长反常衍射方法的最大似然重原子参数精修
Methods Enzymol. 1997;276:472-494. doi: 10.1016/S0076-6879(97)76073-7.
2
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.
3
Crystal structure of an avian influenza polymerase PA(N) reveals an endonuclease active site.禽流感聚合酶PA(N)的晶体结构揭示了一个核酸内切酶活性位点。
Nature. 2009 Apr 16;458(7240):909-13. doi: 10.1038/nature07720. Epub 2009 Feb 4.
4
Crystal structure of the polymerase PA(C)-PB1(N) complex from an avian influenza H5N1 virus.来自禽流感H5N1病毒的聚合酶PA(C)-PB1(N)复合物的晶体结构。
Nature. 2008 Aug 28;454(7208):1123-6. doi: 10.1038/nature07120. Epub 2008 Jul 9.
5
LINE-1 retrotransposition requires the nucleic acid chaperone activity of the ORF1 protein.LINE-1逆转座需要ORF1蛋白的核酸伴侣活性。
J Mol Biol. 2005 May 6;348(3):549-61. doi: 10.1016/j.jmb.2005.03.003.
6
Developments in the CCP4 molecular-graphics project.CCP4分子图形项目的进展。
Acta Crystallogr D Biol Crystallogr. 2004 Dec;60(Pt 12 Pt 1):2288-94. doi: 10.1107/S0907444904023716. Epub 2004 Nov 26.
7
High-affinity, non-sequence-specific RNA binding by the open reading frame 1 (ORF1) protein from long interspersed nuclear element 1 (LINE-1).来自长散在核元件1（LINE-1）的开放阅读框1（ORF1）蛋白与RNA的高亲和力、非序列特异性结合。
J Biol Chem. 2003 Mar 7;278(10):8112-7. doi: 10.1074/jbc.M210487200. Epub 2002 Dec 27.
8
Nucleic acid chaperone activity of the ORF1 protein from the mouse LINE-1 retrotransposon.来自小鼠LINE-1反转录转座子的ORF1蛋白的核酸伴侣活性。
Mol Cell Biol. 2001 Jan;21(2):467-75. doi: 10.1128/MCB.21.2.467-475.2001.
9
PDBsum: summaries and analyses of PDB structures.PDBsum：蛋白质数据银行（PDB）结构的总结与分析。
Nucleic Acids Res. 2001 Jan 1;29(1):221-2. doi: 10.1093/nar/29.1.221.
10
Deletion analysis defines distinct functional domains for protein-protein and nucleic acid interactions in the ORF1 protein of mouse LINE-1.缺失分析确定了小鼠LINE-1的ORF1蛋白中蛋白质-蛋白质和核酸相互作用的不同功能域。
J Mol Biol. 2000 Nov 17;304(1):11-20. doi: 10.1006/jmbi.2000.4182.
Zotero 插件