Comparative biochemical characterization and in silico analysis of novel lipases Lip11 and Lip12 with Lip2 from Yarrowia lipolytica

World Journal of Microbiology and Biotechnology

Volumn 28, Issue 11, 2012, Pages 3103-3111

  Kumari, Arti ^a   Verma, Ved Vrat ^a   Gupta, Rani ^a  

^a UNIVERSITY OF DELHI   (India)

Author keywords

Lipase; Regioselectivity; Thermostable; Thiol activation; Yarrowia lipolytica MSR80

Indexed keywords

AMINO ACID ANALYSIS; BIOCHEMICAL CHARACTERIZATION; E. COLI; EXTRACELLULAR PROTEINS; IN-SILICO; LONG CHAIN FATTY ACID; N-BROMOSUCCINIMIDE; NON-POLAR SOLVENTS; OLIVE OIL; POLAR SOLVENTS; REGIO-SELECTIVE; SDS-PAGE; SEQUENCE ANALYSIS; SPECIFIC ACTIVITY; SUBSTRATE SPECIFICITY; THERMOSTABLE; THIOL-ACTIVATION; TRIACYL GLYCERIDE; TRIOLEIN HYDROLYSIS; VARIOUS SUBSTRATES; YARROWIA LIPOLYTICA;

AFFINITY CHROMATOGRAPHY; AMINO ACIDS; CHARACTERIZATION; CLONING; ESCHERICHIA COLI; METAL IONS; REGIOSELECTIVITY; SUBSTRATES; VEGETABLE OILS;

LIPASES;

ENZYME ACTIVATOR; ENZYME INHIBITOR; HYBRID PROTEIN; TRIACYLGLYCEROL LIPASE;

AFFINITY CHROMATOGRAPHY; ARTICLE; BIOLOGY; CHEMISTRY; COMPARATIVE STUDY; ENZYME SPECIFICITY; ENZYME STABILITY; ENZYMOLOGY; ESCHERICHIA COLI; GENE EXPRESSION; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MOLECULAR CLONING; PH; TEMPERATURE; YARROWIA;

CHROMATOGRAPHY, AFFINITY; CLONING, MOLECULAR; COMPUTATIONAL BIOLOGY; ENZYME ACTIVATORS; ENZYME INHIBITORS; ENZYME STABILITY; ESCHERICHIA COLI; GENE EXPRESSION; HYDROGEN-ION CONCENTRATION; LIPASE; RECOMBINANT FUSION PROTEINS; SUBSTRATE SPECIFICITY; TEMPERATURE; YARROWIA;

YARROWIA LIPOLYTICA;

EID: 84867121244     PISSN: 09593993     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11274-012-1120-4     Document Type: Article

References (30)

1. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
2. Arpigny JL, Jaeger KE (1999) Bacterial lipolytic enzymes: classification and properties. Biochem J 343: 177-183.
3. Bordes F, Barbe S, Escalie P, Mourey L, Andre I, Marty A, Tranier S (2010) Exploring the conformational states and rearrangements of Yarrowia lipolytica lipase. Biophys J 99: 2225-2234.
4. Brocca S, Secundo F, Ossola M, Alberghina L, Carrea G, Lotti M (2003) Sequence of the lid affects activity and specificity of Candida rugosa lipase isoenzymes. Protein Sci 12: 2312-2319.
5. Brzozowski AM, Derewenda ZS, Dodson EJ, Dodson GG, Turkenburg JP (1992) Structure and molecular-model refinement of rhizomucor-miehei triacylglyceride lipase-a case-study of the use of simulated annealing in partial model refinement. Acta Crystallogr 48: 307-319.
6. Brzozowski MA, Savage H, Verma SC, Turkenburg PJ, Lawson MD, Svendsen A, Patkar S (2000) Structural origins of the interfacial activation in Thermomyces (Humicola) lanuginosa Lipase. J Biochem 39: 15071-15082.
7. Canutescu AA, Shelenkov AA, Dunbrack RL (2003) A graph theory algorithm for protein side-chain prediction. Protein Sci 12: 2001-2014.
8. Colovos C, Yeates TO (1993) Verification of protein structures: patterns of nonbonded atomic interactions. Protein Sci 9: 1511-1519.
9. Eswar N, Webb B, Marti RMA, Madhusudhan MS, Eramian D, Shen MY, Pieper U, Sali A (2006). Comparative protein structure modelling with MODELLER. Current Protocols in Bioinformatics, vol 15. Wiley, pp 5. 6. 1-5. 6. 30.
10. Ficker P, Le DMT, Casaregola S, Gaillardin C, Thonart P, Nicaud JM (2005) Identification and charecterization of Lip7 and Lip8 genes encoding two extracellular triacylglycerol lipases in the yeast Yarrowia lipolytica. Fungal Genet Biol 42: 264-274.
11. Ficker P, Marty A, Nicaud TM (2011) The lipases from Yarrowia lipolytica: genetics, production, regulation, biochemical characterization and biotechnological applications. Biotechnol Adv 29: 632-644.
12. Harju S, Fedosyuk H, Peterson KR (2004) Rapid isolation of yeast genomic DNA. BMC Biotechnol 4: 4-8.
13. Jaeger KE, Dijkstra BW, Reetz MT (1999) Bacterial biocatalysts: molecular biology, three-dimensional structures and biotechnological applications of lipases. Annu Rev Microbiol 53: 315-351.
14. Kohno M, Funatsu J, Mikami B, Kugimiya W, Matsuo T, Morita Y (1996) The crystal structure of lipase II from Rhizopus niveus at 2. 2A resolution. J Biochem 120: 505-510.
15. Krieger E, Joo K, Lee J, Raman S, Thompson J, Tyka M, Baker D, Karplus K (2009) Improving physical realism, stereochemistry and side-chain accuracy in homology modelling: four approaches that performed well in CASP8. Proteins 77: 114-122.
16. Kumar SS, Gupta R (2008) A thiol activated lipase from Trichosporon asahii MSR54: detergent compatibility and pre-soak formulation for oil removal from soiled cloth at ambient temperature. J Microbiol Biotechnol 10: 513-521.
17. Kumari A, Gupta R (2010) Extracellular expression and characterisation of thermostable Lip8, Lip14 and Lip18 from Yarrowia lipolytica. Biotechnol Lett. doi: 10. 1007/S10529-012-0958-8.
18. Laemmli UK (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227: 680-685.
19. Mingrui Y, Shaowei Q, Tianwei T (2007) Purification and characterization of the extracellular lipase Lip2 from Yarrowia lipolytica. Process biochem 42(3): 384-391.
20. Naka Y, Nakamura T (1992) The effect of serum albumin and related amino acid on pancreatic lipase and biles salts inhibited microbial lipases. Biosci Biotechnol Biochem 56: 1066-1070.
21. Sharma R, Gupta R (2010) Extracellular expression of keratinases Ker P from Pseudomonas aeruginosa in E. coli. Biotechnol Lett 32: 1863-1868.
22. Singh R, Gupta N, Goswami VK, Gupta R (2006) A simple activity staining protocol for lipases and esterases. Appl Microbiol Biotechnol 70: 679-682.
23. Szilagyi A, Zavodsky P (2000) Structural differences between mesophilic, moderately thermophilic and extremely thermophilic protein subunits: results of a comprehensive survey. Struct Fold Des 8: 493-504.
24. Vakhlu J, Kour A (2006) Yeast lipases: enzyme purification, biochemical properties and gene cloning. Electron J Biotechnol 9: 69-85.
25. Vendittis E, Castellano I, Cotugno R, Ruocco MR, Raimo G, Masullo M (2008) Adaptation of model proteins from cold to hot environments involves continuous and small adjustments of average parameters related to amino acid composition. J Theor Biol 250: 156-171.
26. Willard L, Ranjan A, Zhang H, Monzavi H, Boyko RF, Sykes BD, Wishart DS (2003) VADAR: a web server for quantitative evaluation of protein structure quality. Nucleic Acids Res 13: 3316-3319.
27. Wrinkler UK, Stuckman M (1979) Glycogen, hyaluronate and some other polysaccharides greatly enhance the formation of exolipase by Serratia marcescens. J Bact 138: 663-679.
28. Yu MR, Qin SW, Tan TW (2007a) Purification and characterization of the extracellular lipase Lip2 from Yarrowia lipolytica. Process Biochem 42: 384-391.
29. Yu MR, Lange S, Richter S (2007b) Higher level expression of extracellular lipase Lip2 from Yarrowia lipolyitca in Pichia pastoris and its purification and characterisation. Protein Expr Purif 53: 255-263.
30. Zhao H, Zheng L, Wang X, Liu Y, Xu L, Yan Y (2011) Cloning, expression and characterization of new lipases from Yarrowia lipolytica. Biotechnol Lett 33: 2445-2452.