A green fluorescent protein screen for identification of well-expressed membrane proteins from a cohort of extremophilic organisms

Protein Science

Volumn 18, Issue 1, 2009, Pages 121-133

  Hammon, Justus ^a   Palanivelu, Dinesh V ^a   Chen, Joy ^a   Patel, Chintan ^a   Minor Jr , Daniel L ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Extremophile; GFP screen; Membrane protein expression

Indexed keywords

GREEN FLUORESCENT PROTEIN; MEMBRANE PROTEIN;

ARTICLE; CARBOXY TERMINAL SEQUENCE; CODON USAGE; CONTROLLED STUDY; ESCHERICHIA COLI; FLUORESCENCE ANALYSIS; GEL PERMEATION CHROMATOGRAPHY; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION;

BACTERIA; CHROMATOGRAPHY, GEL; CLONING, MOLECULAR; CODON; DETERGENTS; ESCHERICHIA COLI; GREEN FLUORESCENT PROTEINS; MEMBRANE PROTEINS; PROTEOMICS; RECOMBINANT FUSION PROTEINS;

ARCHAEA; BACTERIA (MICROORGANISMS);

EID: 58149478359     PISSN: 09618368     EISSN: 1469896X     Source Type: Journal    
DOI: 10.1002/pro.18     Document Type: Article

References (51)

1. Grisshammer R, Tate CG (1995) Overexpression of integral membrane proteins for structural studies. Q Rev Biophys 28:315-422.
2. Lacapere JJ, Pebay-Peyroula E, Neumann JM, Etchebest C (2007) Determining membrane protein structures: still a challenge! Trends Biochem Sci32:259-270.
3. Waldo GS, Standish BM, Berendzen J, Terwilliger TC (1999) Rapid protein-folding assay using green fluorescent protein. Nat Biotechnol 17:691-695.
4. Drew DE, von Heijne G, Nordlund P, de Gier JW (2001) Green fluorescent protein as an indicator to monitor membrane protein overexpression in Escherichia coli. FEBS Lett 507:220-224.
5. Cabantous S, Pedelacq JD, Mark BL, Naranjo C, Terwilliger TC, Waldo GS (2005) Recent advances in GFP folding reporter and split-GFP solubility reporter technologies. Application to improving the folding and solubility of recalcitrant proteins from Mycobacterium tuberculosis. J Struct Funct Genomics 6:113-119.
6. Drew D, Slotboom DJ, Friso G, Reda T, Genevaux P, Rapp M, Meindl-Beinker NM, Lambert W, Lerch M, Daley DO, Van Wijk KJ, Hirst J, Kunji E, De Gier JW (2005) A scalable, GFP-based pipeline for membrane protein overexpression screening and purification. Protein Sci 14:2011-2017.
7. Drew D, Lerch M, Kunji E, Slotboom DJ, de Gier JW (2006) Optimization of membrane protein overexpression and purification using GFP fusions. Nat Methods 3:303-313.
8. Kawate T, Gouaux E (2006) Fluorescence-detection size-exclusion chromatography for precrystallization screening of integral membrane proteins. Structure 14:673-681.
9. Newstead S, Kim H, von Heijne G, Iwata S, Drew D (2007) High-throughput fluorescent-based optimization of eukaryotic membrane protein overexpression and purification in Saccharomyces cerevisiae. Proc Natl Acad Sci USA 104:13936-13941.
10. Reid BG, Flynn GC (1997) Chromophore formation in green fluorescent protein. Biochemistry 36:6786-6791.
11. Wachter RM (2007) Chromogenic cross-link formation in green fluorescent protein. Acc Chem Res 40:120-127.
12. Drew D, Sjostrand D, Nilsson J, Urbig T, Chin CN, de Gier JW, von Heijne G (2002) Rapid topology mapping of Escherichia coli inner-membrane proteins by prediction and PhoA/GFP fusion analysis. Proc Natl Acad Sci USA 99:2690-2695.
13. Aslanidis C, de Jong PJ (1990) Ligation-independent cloning of PCR products (LIC-PCR). Nucleic Acids Res 18:6069-6074.
14. Kapust RB, Waugh DS (2000) Controlled intracellular processing of fusion proteins by TEV protease. Protein Expr Purif 19:312-318.
15. Zhang G, Gurtu V, Kain SR (1996) An enhanced green fluorescent protein allows sensitive detection of gene transfer in mammalian cells. Biochem Biophys Res Commun 227:707-711.
16. Krogh A, Larsson B, von Heijne G, Sonnhammer EL (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol 305:567-580.
17. Jenney FE, Jr, Adams MW (2008) The impact of extremophiles on structural genomics (and vice versa). Extremophiles 12:39-50.
18. Savage DF, Egea PF, Robles-Colmenares Y, O'Connell JD, III, Stroud RM (2003) Architecture and selectivity in aquaporins: 2.5 a X-ray structure of aquaporin Z. PLoS Biol 1:E72.
19. Jiang J, Daniels BV, Fu D (2006) Crystal structure of AqpZ tetramer reveals two distinct Arg-189 conformations associated with water permeation through the narrowest constriction of the water-conducting channel. J Biol Chem 281:454-460.
20. Jiang Y, Lee A, Chen J, Ruta V, Cadene M, Chait BT, MacKinnon R (2003) X-ray structure of a voltage-dependent K+ channel. Nature 423:33-41.
21. Lee SY, Lee A, Chen J, MacKinnon R (2005) Structure of the KvAP voltage-dependent K+ channel and its dependence on the lipid membrane. Proc Natl Acad Sci USA 102:15441-15446.
22. Wiener MC (2004) A pedestrian guide to membrane protein crystallization. Methods 34:364-372.
23. Prive GG (2007) Detergents for the stabilization and crystallization of membrane proteins. Methods 41:388-397.
24. Michel H (1982) Three-dimensional crystals of a membrane protein complex. The photosynthetic reaction centre from Rhodopseudomonas viridis. J Mol Biol 158:567-572.
25. Borths EL, Locher KP, Lee AT, Rees DC (2002) The structure of Escherichia coli BtuF and binding to its cognate ATP binding cassette transporter. Proc Natl Acad Sci USA 99:16642-16647.
26. Daniels BV, Jiang JS, Fu D (2004) Crystallization and preliminary crystallographic analysis of the Escherichia coli water channel AqpZ. Acta Crystallogr D Biol Crystallogr 60:561-563.
27. Lewinson O, Lee AT, Rees DC (2008) The funnel approach to the precrystallization production of membrane proteins. J Mol Biol 377:62-73.
28. Bass RB, Strop P, Barclay M, Rees DC (2002) Crystal structure of Escherichia coli MscS, a voltage-modulated and mechanosensitive channel. Science 298:1582-1587.
29. Wang W, Black SS, Edwards MD, Miller S, Morrison EL, Bartlett W, Dong C, Naismith JH, Booth IR (2008) The structure of an open form of an E. coli mechanosensitive channel at 3.45 Å resolution. Science 321:1179-1183.
30. Baker KA, Tzitzilonis C, Kwiatkowski W, Choe S, Riek R (2007) Conformational dynamics of the KcsA potassium channel governs gating properties. Nat Struct Mol Biol 14:1089-1095.
31. McDevitt CA, Collins RF, Conway M, Modok S, Storm J, Kerr ID, Ford RC, Callaghan R (2006) Purification and 3D structural analysis of oligomeric human multidrug transporter ABCG2. Structure 14:1623-1632.
32. Carpenter EP, Beis K, Cameron AD, Iwata S (2008) Overcoming the challenges of membrane protein crystallography. Curr Opin Struct Biol 18:581-586.
33. Sharp PM, Li WH (1987) The codon Adaptation Index-a measure of directional synonymous codon usage bias, and its potential applications. Nucleic Acids Res 15:1281-1295.
34. Gustafsson C, Govindarajan S, Minshull J (2004) Codon bias and heterologous protein expression. Trends Biotechnol 22:346-353.
35. Jana S, Deb JK (2005) Strategies for efficient production of heterologous proteins in Escherichia coli. Appl Microbiol Biotechnol 67:289-298.
36. Hernan RA, Hui HL, Andracki ME, Noble RW, Sligar SG, Walder JA, Walder RY (1992) Human hemoglobin expression in Escherichia coli: importance of optimal codon usage. Biochemistry 31:8619-8628.
37. Li A, Kato Z, Ohnishi H, Hashimoto K, Matsukuma E, Omoya K, Yamamoto Y, Kondo N (2003) Optimized gene synthesis and high expression of human interleukin-18. Protein Expr Purif 32:110-118.
38. Hedfalk K, Pettersson N, Oberg F, Hohmann S, Gordon E (2008) Production, characterization and crystallization of the Plasmodium falciparum aquaporin. Protein Expr Purif 59:69-78.
39. Burgess-Brown NA, Sharma S, Sobott F, Loenarz C, Oppermann U, Gileadi O (2008) Codon optimization can improve expression of human genes in Escherichia coli: a multi-gene study. Protein Expr Purif 59:94-102.
40. Mehlin C, Boni E, Buckner FS, Engel L, Feist T, Gelb MH, Haji L, Kim D, Liu C, Mueller N, Myler PJ, Reddy JT, Sampson JN, Subramanian E, Van Voorhis WC, Worthey E, Zucker F, Hol WG (2006) Heterologous expression of proteins from Plasmodium falciparum: results from 1000 genes. Mol Biochem Parasitol 148:144-160.
41. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 1215:403-410.
42. Cordingley MG, Callahan PL, Sardana VV, Garsky VM, Colonno RJ (1990) Substrate requirements of human rhinovirus 3C protease for peptide cleavage in vitro. J Biol Chem 265:9062-9065.
43. Miroux B, Walker JE (1996) Over-production of proteins in Escherichia coli: mutant hosts that allow synthesis of some membrane proteins and globular proteins at high levels. J Mol Biol 260:289-298.
44. Edelhoch H (1967) Spectroscopic determination of tryptophan and tyrosine in proteins. Biochemistry 6:1948-1954.
45. Wu G, Culley DE, Zhang W (2005) Predicted highly expressed genes in the genomes of Streptomyces coeli-color and Streptomyces avermitilis and the implications for their metabolism. Microbiology 151:2175-2187.
46. Molina DM, Cornvik T, Eshaghi S, Haeggstrom JZ, Nordlund P, Sabet MI (2008) Engineering membrane protein overproduction in Escherichia coli. Protein Sci 17:673-680.
47. Jacobs SA, Podell ER, Cech TR (2006) Crystal structure of the essential N-terminal domain of telomerase reverse transcriptase. Nat Struct Mol Biol 13:218-225.
48. Jacobs SA, Podell ER, Wuttke DS, Cech TR (2005) Soluble domains of telomerase reverse transcriptase identified by high-throughput screening. Protein Sci 14:2051-2058.
49. Fitzgerald DJ, Berger P, Schaffitzel C, Yamada K, Richmond TJ, Berger I (2006) Protein complex expression by using multigene baculoviral vectors. Nat Methods 3:1021-1032.
50. Fitzgerald DJ, Schaffitzel C, Berger P, Wellinger R, Bieniossek C, Richmond TJ, Berger I (2007) Multiprotein expression strategy for structural biology of eukaryotic complexes. Structure 15:275-279.
51. Bieniossek C, Richmond TJ, Berger I (2008) MultiBac: multigene baculovirus-based eukaryotic protein complex production. Curr Protoc Protein Sci 5:Unit 5 20.