全部 标题 作者
关键词 摘要

OALib Journal期刊
ISSN: 2333-9721
费用:99美元

查看量下载量

相关文章

更多...

对嗜压蛋白氨基酸压力不对称指数的修订

DOI: 10.11830/ISSN.1000-5013.2012.01.0044

Keywords: 嗜压微生物, 压力不对称指数, 氨基酸, 倾向因子, 适压机制

Full-Text   Cite this paper   Add to My Lib

Abstract:

选取嗜压菌最多的4种希瓦氏菌属(Shewanella)微生物共计473对同源蛋白,统计了21 662个氨基酸突变位点,在此基础上计算氨基酸压力不对称指数(PAI),并将其同氨基酸70种理化性质进行相关性分析.结果表明:色氨酸和异亮氨酸的嗜压性能最强,而脯氨酸、甘氨酸和天冬酰胺的嗜压性能最弱,这与之前的报道存在较大差异.此外,70种氨基酸理化性质中有13种同PAI存在较强的相关性,其中仅有氨基酸的无规则倾向因子同PAI呈负相关,表明高的PAI值不易形成卷曲.由于展示的PAI值更适合于处于低温环境下的嗜压微生物,因此对以前的PAI值进行了修正.

References

[1]  ABRAM A, FILIP M, MARC E G H. Biotechnology under high pressure:Applications and implications [J]. Trends in Biotechnology, 2009(7):434-441.
[2]  MOMBELLI E, SHEHI E, FUSI P. Exploring hyperthermophilic proteins under pressure:Theoretical aspects and experimental findings [J]. Biochimica Et Biophysica Acta, 2002, (1/2):392-396.
[3]  RIE S, CHIAKI K, AKIHIKO N. Amino acid substitutions in malate dehydrogenases of piezophilic bacteria isolated from intestinal contents of deep-sea fishes retrieved from the abyssal zone [J]. Journal of General and Applied Microbiology, 2006(1):9-19.doi:10.2323/jgam.52.9.
[4]  EI-HAJJ Z W, ALLCOCK D, TRYFONA T. Insights into piezophily from genetic studies on the deep-sea bacterium, Photobacterium profundum SS9 [J]. Annals of the New York Academy of Sciences, 2010.143-148.
[5]  BUCKOW R, WEISS U, HEINZ V. Stability and catalytic activity of a-amylase from barley malt at different pressure-temperature conditions [J]. Biotechnology and Bioengineering, 2007(1):1-11.doi:10.1002/bit.21209.
[6]  FRANCESCA S, STEFANO C, FEDERICO M L. Piezophilic adaptation:A genomic point of view [J]. Journal of Biotechnology, 2006(1):11-25.doi:10.1016/j.jbiotec.2006.03.038.
[7]  MCDONALD J H. Temperature adaptation at homologous sites in proteins from nine thermophile-mesophile species pairs [J]. Genome Biol Evol, 2010.267-276.doi:10.1093/gbe/evq017.
[8]  GOODARZI H, TORABI N, NAJAFABADI H S. Amino acid and codon usage profiles:Adaptive changes in the frequency of amino acids and codons [J]. Gene, 2008.30-41.doi:10.1016/j.gene.2007.09.020.
[9]  DI GIULIO M. A comparison of proteins from Pyrococcus furiosus and Pyrococcus abyssi:Barophily in the physicochemical properties of amino acids and in the genetic code [J]. Gene, 2005.1-6.
[10]  张光亚, 李红春, 高嘉强. 氨基酸和二肽组成对嗜压微生物蛋白质稳定性的影响 [J]. 微生物学报, 2009(2):198-203.doi:10.1109/TNN.2011.2165081.
[11]  张光亚, 李红春, 高嘉强. 嗜压蛋白氨基酸残基溶剂可及性对其稳定性的影响 [J]. 微生物学报, 2010(5):621-627.doi:10.1016/j.resp.2008.11.007.
[12]  FANG J, ZHANG L, BAZYLINSKI D A. Deep-sea piezosphere and piezophiles:Geomicrobiology and biogeochemistry [J]. Trends in Microbiology, 2010(9):413-422.doi:10.1016/j.tim.2010.06.006.
[13]  DELONG E F, FRANKS D G, YAYANOS A A. Evolutionary relationships of cultivated psychrophilic and barophilic deep-sea bacteria [J]. Applied and Environmental Microbiology, 1997(5):2105-2108.
[14]  AONO E, BABA T, ARA T. Complete genome sequence and comparative analysis of Shewanella violacea, a psychrophilic and piezophilic bacterium from deep sea floor sediments [J]. MOLECULAR BIOSYSTEMS, 2010(7):1216-1226.doi:10.1039/c000396d.
[15]  JAIN E, BAIROCH A, DUVAUD S. Infrastructure for the life sciences:Design and implementation of the UniProt website [J]. BMC Bioinformatics, 2009.136.doi:10.1186/1471-2105-10-136.
[16]  ALTSCHUL S F, MADDEN T L, SCHAFFER A A. Gapped BLAST and PSI-BLAST:A new generation of protein database search programs [J]. Nucleic Acids Research, 1997, (17):3389-3402.doi:10.1093/nar/25.17.3389.
[17]  LARKIN M A, BLACKSHIELDS G, BROWN N P. Clustal W and Clustal X version 2.0 [J]. Bioinformatics, 2007, (21):2947-2948.doi:10.1093/bioinformatics/btm404.
[18]  MCDONALD J H, GRASSO A M, REJTO L K. Patterns of temperature adaptation in proteins from Methanococcus and Bacillus [J]. Molecular Biology and Evolution, 1999, (12):1785-1790.doi:10.1093/oxfordjournals.molbev.a026090.
[19]  MCDONALD J H. Patterns of temperature adaptation in proteins from the bacteria Deinococcus radiodurans and Thermus thermophilus [J]. Molecular Biology and Evolution, 2001(5):741-749.doi:10.1093/oxfordjournals.molbev.a003856.
[20]  KAWASHIMA S, POKAROWSKI P, POKAROWSKA M. AAindex:Amino acid index database, progress report 2008 [J]. Nucleic Acids Research, 2008, (z1):202-205.
[21]  MA J C, DOUGHERTY D A. The cation-π interaction [J]. Chemical Reviews, 1997(5):1303-1324.
[22]  PACK S P, YOO Y J. Protein thermo-stability:Structure-based difference of amino acid between thermophilic and mesophilic proteins [J]. Journal of Biotechnology, 2004(3):269-277.doi:10.1016/j.jbiotec.2004.01.018.
[23]  ARN(O)RSD(O)TTIR J, KRISTJ(A)NSSON M M, FICNER R. Crystal structure of a subtilisin-like serine proteinase from a psychrotrophic Vibrio species reveals structural aspects of cold adaptation [J]. FEBS Journal, 2005(3):832-845.doi:10.1111/j.1742-4658.2005.04523.x.
[24]  CHOU P Y, FASMAN G D. Empirical predictions of protein conformation [J]. Annual Review of Biochemistry, 1978.251-276.doi:10.1146/annurev.bi.47.070178.001343.
[25]  SONAN G K, RECEVEUR-BRECHOT V, DUEZET C. The linker region plays a key role in the adaptation to cold of the cellulase from an Antarctic bacterium [J]. Biochemical Journal, 2007(2):293-302.doi:10.1042/BJ20070640.
[26]  ANDR(A)S S, P(E)TER Z. Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits:Results of a comprehensive survey [J]. Structures, 2000(5):493-504.
[27]  OOI T, OOBATAKE M, NMMETHY G. Accessible surface areas as a measure of the thermodynamic parameters of hydration of peptides [J]. Proceedings of the National Academy of Sciences(USA), 1987, (10):3086-3090.doi:10.1073/pnas.84.10.3086.
[28]  SILVA J L, FOGUEL D. Hydration, cavities and volume in protein folding, aggregation and amyloid assembly [J]. PHYSICAL BIOLOGY, 2009(1):15002.doi:10.1088/1478-3975/6/1/015002.
[29]  NOLWENNIG R, JEAN R, G(E)RARD D. Development of high hydrostatic pressure in biosciences:Pressure effect on biological structures and potential applications in biotechnologies [J]. Biotechnology Advances, 2010(6):659-672.
[30]  SANDIP P, SUMIT K B, SABYASACHI D. Molecular signature of hypersaline adaptation:Insights from genome and proteome composition of halophilic prokaryotes [J]. Genome Biology, 2008(4):70.

Full-Text

Contact Us

service@oalib.com

QQ:3279437679

WhatsApp +8615387084133