TIM 桶状 prenyl 转移酶机制的研究进展：枯草芽孢杆菌和金黄色葡萄球菌 PcrB 的晶体结构。
Insights into TIM-barrel prenyl transferase mechanisms: crystal structures of PcrB from Bacillus subtilis and Staphylococcus aureus.
机构信息
Industrial Enzymes National Engineering Laboratory, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, 32 XiQiDao, Tianjin 300308, China.
出版信息
Chembiochem. 2013 Jan 21;14(2):195-9. doi: 10.1002/cbic.201200748. Epub 2013 Jan 15.
Abstract
Well structured: As a new triose phosphate isomerase (TIM) barrel-fold prenyl transferase, PcrB catalyzes the production of heptaprenylglyceryl phosphate from heptaprenyl diphosphate and glycerol-1-phosphate. Crystal structures of PcrB from Bacillus subtilis and Staphylococcus aureus in complex with ligands were solved, and together with site-directed mutagenesis and bioinformatics analyses, clearly reveal the catalytic mechanism of the enzyme.
摘要
结构合理
作为一种新型的磷酸丙糖异构酶（TIM）桶状 prenyl 转移酶，PcrB 催化从七异戊二烯二磷酸和甘油-1-磷酸生成七异戊烯基甘油磷酸。已解析出枯草芽孢杆菌和金黄色葡萄球菌 PcrB 与配体复合物的晶体结构，并结合定点突变和生物信息学分析，清楚地揭示了该酶的催化机制。
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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
Dimerization determines substrate specificity of a bacterial prenyltransferase.
Chembiochem. 2012 Jun 18;13(9):1297-303. doi: 10.1002/cbic.201200127. Epub 2012 May 21.
3
Insights into the mechanism of the antibiotic-synthesizing enzyme MoeO5 from crystal structures of different complexes.
Angew Chem Int Ed Engl. 2012 Apr 23;51(17):4157-60. doi: 10.1002/anie.201108002. Epub 2012 Mar 16.
4
Terpene biosynthesis: modularity rules.
Angew Chem Int Ed Engl. 2012 Jan 27;51(5):1124-37. doi: 10.1002/anie.201103110. Epub 2011 Nov 21.
5
Functional assignment of an enzyme that catalyzes the synthesis of an archaea-type ether lipid in bacteria.
Angew Chem Int Ed Engl. 2011 Aug 22;50(35):8188-91. doi: 10.1002/anie.201101832. Epub 2011 Jul 14.
6
Two distinct mechanisms for TIM barrel prenyltransferases in bacteria.
J Am Chem Soc. 2011 Feb 9;133(5):1270-3. doi: 10.1021/ja109578b. Epub 2011 Jan 7.
7
Isoprenoid biosynthesis in Archaea--biochemical and evolutionary implications.
Res Microbiol. 2011 Jan;162(1):39-52. doi: 10.1016/j.resmic.2010.10.003. Epub 2010 Oct 27.
8
Features and development of Coot.
Acta Crystallogr D Biol Crystallogr. 2010 Apr;66(Pt 4):486-501. doi: 10.1107/S0907444910007493. Epub 2010 Mar 24.
9
Complete characterization of the seventeen step moenomycin biosynthetic pathway.
Biochemistry. 2009 Sep 22;48(37):8830-41. doi: 10.1021/bi901018q.
10
The Jpred 3 secondary structure prediction server.
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W197-201. doi: 10.1093/nar/gkn238. Epub 2008 May 7.
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