Disulfide trapping of protein complexes on the yeast surface

Biotechnology and Bioengineering

Volumn 106, Issue 1, 2010, Pages 27-41

  Lim, Kok Hong ^a   Madabhushi, Sri Ranganayaki ^a   Mann, Jasdeep ^a   Neelamegham, Sriram ^a   Park, Sheldon ^a  

^a State University of New York   (United States)

Author keywords

Disulfide trapping; Protein protein interaction; Quaternary structure; Yeast surface display

Indexed keywords

BROAD SPECTRUM; CROSSLINKS; FLUORESCENCE LABELING; FUNCTIONAL CHARACTERISTICS; HIGH THROUGHPUT; IN-VITRO; LONG INDUCTION PERIODS; NON-COVALENT COMPLEXES; PROTEIN ASSOCIATIONS; PROTEIN COMPLEXES; PROTEIN-PROTEIN INTERACTION; PROTEIN-PROTEIN INTERACTIONS; QUATERNARY STRUCTURE; SECRETORY PATHWAYS; SUBUNIT DISSOCIATION; SURFACE DISPLAYS; TECHNICAL DIFFICULTIES; THREE SYSTEMS; VARIABLE DOMAIN; YEAST DISPLAY;

BIOLOGY; DISSOCIATION; PROTEINS; SURFACE STRUCTURE; YEAST;

COMPLEXATION;

FLUORESCENT DYE; IMMUNOGLOBULIN HEAVY CHAIN; IMMUNOGLOBULIN LIGHT CHAIN; INTERLEUKIN 8; MUTANT PROTEIN; PROTEIN MDM2; PROTEIN P53; SINGLE CHAIN FRAGMENT VARIABLE ANTIBODY;

ARTICLE; BINDING AFFINITY; COMPLEX FORMATION; CONTROLLED STUDY; COVALENT BOND; CROSS LINKING; DISSOCIATION CONSTANT; DISULFIDE BOND; MOLECULAR STABILITY; MUTATION; NONHUMAN; PROTEIN ENGINEERING; PROTEIN EXPRESSION; PROTEIN PROTEIN INTERACTION; YEAST; YEAST DISPLAY;

DISULFIDES; KINETICS; MEMBRANE PROTEINS; MODELS, MOLECULAR; PROTEIN MULTIMERIZATION; PROTEIN STABILITY; PROTEIN STRUCTURE, QUATERNARY; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS;

EID: 77951523564     PISSN: 00063592     EISSN: 10970290     Source Type: Journal    
DOI: 10.1002/bit.22651     Document Type: Article

References (60)

1. Baggiolini M. 1998. Chemokines and leukocyte traffic. Nature 392(6676):565-568.
2. Bessette PH, Rice JJ, Daugherty PS. 2004. Rapid isolation of high-affinity protein binding peptides using bacterial display. Protein Eng Des Sel 17(10):731-739.
3. Boder ET, Wittrup KD. 1997. Yeast surface display for screening combinatorial polypeptide libraries. Nat Biotechnol 15(6):553-557.
4. Boder ET, Midelfort KS, Wittrup KD. 2000. Directed evolution of antibody fragments with monovalent femtomolar antigen-binding affinity. Proc Natl Acad Sci USA 97(20):10701-10705.
5. Boder ET, Bill JR, Nields AW, Marrack PC, Kappler JW. 2005. Yeast surface display of a noncovalent MHC class II heterodimer complexed with antigenic peptide. Biotechnol Bioeng 92(4):485-491.
6. Buck E, Wells JA. 2005. Disulfide trapping to localize small-molecule agonists and antagonists for a G protein-coupled receptor. Proc Natl Acad Sci USA 102(8):2719-2724. (Pubitemid 40299859)
7. Buck E, Bourne H, Wells JA. 2005. Site-specific disulfide capture of agonist and antagonist peptides on the C5a receptor. J Biol Chem 280(6):4009-4012. (Pubitemid 40288561)
8. Burrows SD, Doyle ML, Murphy KP, Franklin SG, White JR, Brooks I, McNulty DE, Scott MO, Knutson JR, Porter D, Young PR, Hensley P. 1994. Determination of the monomer-dimer equilibrium of interleukin-8 reveals it is a monomer at physiological concentrations. Biochemistry 33(43):12741-12745. (Pubitemid 24352861)
9. Cabantous S, Terwilliger TC, Waldo GS. 2005. Protein tagging and detection with engineered self-assembling fragments of green fluorescent protein. Nat Biotechnol 23(1):102-107. (Pubitemid 41724632)
10. Cappellaro C, Baldermann C, Rachel R, Tanner W. 1994. Mating type-specific cell-cell recognition of Saccharomyces cerevisiae: Cell wall attachment and active sites of a- and alpha-agglutinin. EMBO J 13(20):4737-4744. (Pubitemid 24319355)
11. Clements JM, Catlin GH, Price MJ, Edwards RM. 1991. Secretion of human epidermal growth factor from Saccharomyces cerevisiae using synthetic leader sequences. Gene 106(2):267-271.
12. Clore GM, Appella E, Yamada M, Matsushima K, Gronenborn AM. 1990. Three-dimensional structure of interleukin 8 in solution. Biochemistry 29(7):1689-1696.
13. Creighton TE. 1993. Proteins structure and molecular properties. New York: W.H. Freeman and Company.
14. Daugherty PS. 2007. Protein engineering with bacterial display. Curr Opin Struct Biol 17(4):474-480.
15. Dealwis C, Fernandez EJ, Thompson DA, Simon RJ, Siani MA, Lolis E. 1998. Crystal structure of chemically synthesized [N33A] stromal cell-derived factor 1alpha, a potent ligand for the HIV-1 "fusin" coreceptor. Proc Natl Acad Sci USA 95(12):6941-6946.
16. DeLano WL. 2002. The PyMOL molecular graphics system. San Carlos, CA, USA: DeLano Scientific. http://www.pymol.org.
17. Dutta S, Koide A, Koide S. 2008. High-throughput analysis of the protein sequence-stability landscape using a quantitative yeast surface two-hybrid system and fragment reconstitution. J Mol Biol 382(3):721-733.
18. Fields S, Song O. 1989. A novel genetic system to detect protein-protein interactions. Nature 340(6230):245-246. (Pubitemid 19171591)
19. Flores G, Soberon X, Osuna J. 2004. Production of a fully functional, permuted single-chain penicillin G acylase. Protein Sci 13(6):1677-1683. (Pubitemid 38669255)
20. Fukuda N, Ishii J, Shibasaki S, Ueda M, Fukuda H, Kondo A. 2007. High-efficiency recovery of target cells using improved yeast display system for detection of protein-protein interactions. Appl Microbiol Biotechnol 76(1):151-158. (Pubitemid 47194672)
21. Furukawa H, Tanino T, Fukuda H, Kondo A. 2006. Development of novel yeast cell surface display system for homo-oligomeric protein by coexpression of native and anchored subunits. Biotechnol Prog 22(4):994-997. (Pubitemid 44230687)
22. Gai SA, Wittrup KD. 2007. Yeast surface display for protein engineering and characterization. Curr Opin Struct Biol 17(4):467-473. (Pubitemid 47454774)
23. Gietz RD, Schiestl RH. 2007. Quick and easy yeast transformation using the LiAc/SS carrier DNA/PEG method. Nat Protoc 2(1):35-37. (Pubitemid 47040066)
24. Glockshuber R, Malia M, Pfitzinger I, Pluckthun A. 1990. A comparison of strategies to stabilize immunoglobulin Fv-fragments. Biochemistry 29(6):1362-1367. (Pubitemid 20063361)
25. Goodsell DS, Olson AJ. 1993. Soluble proteins: Size, shape and function. Trends Biochem Sci 18(3):65-68.
26. Hackel BJ, Kapila A, Wittrup KD. 2008. Picomolar affinity fibronectin domains engineered utilizing loop length diversity, recursive mutagenesis, and loop shuffling. J Mol Biol 381(5):1238-1252.
27. Hu X, Kang S, Chen X, Shoemaker CB, Jin MM. 2009. Yeast surface two-hybrid for quantitative in vivo detection of protein-protein interactions via the secretory pathway. J Biol Chem 284(24):16369-16376.
28. Huang D, Shusta EV. 2005. Secretion and surface display of green fluorescent protein using the yeast Saccharomyces cerevisiae. Biotechnol Prog 21(2):349-357. (Pubitemid 40466405)
29. Ispolatov I, Yuryev A, Mazo I, Maslov S. 2005. Binding properties and evolution of homodimers in protein-protein interaction networks. Nucleic Acids Res 33(11):3629-3635. (Pubitemid 41430585)
30. Karimova G, Pidoux J, Ullmann A, Ladant D. 1998. A bacterial two-hybrid system based on a reconstituted signal transduction pathway. Proc Natl Acad Sci USA 95(10):5752-5756. (Pubitemid 28224168)
31. Kussie PH, Gorina S, Marechal V, Elenbaas B, Moreau J, Levine AJ, Pavletich NP. 1996. Structure of the MDM2 oncoprotein bound to the p53 tumor suppressor transactivation domain. Science 274(5289): 948-953. (Pubitemid 26398409)
32. Leong SR, Lowman HB, Liu J, Shire S, Deforge LE, Gillece-Castro BL, McDowell R, Hebert CA. 1997. IL-8 single-chain homodimers and heterodimers: Interactions with chemokine receptors CXCR1, CXCR2, and DARC. Protein Sci 6(3):609-617.
33. Li Y, Moysey R, Molloy PE, Vuidepot AL, Mahon T, Baston E, Dunn S, Liddy N, Jacob J, Jakobsen BK, et al. 2005. Directed evolution of human T-cell receptors with picomolar affinities by phage display. Nat Biotechnol 23(3):349-354.
34. Lin J, Chen J, Elenbaas B, Levine AJ. 1994. Several hydrophobic amino acids in the p53 amino-terminal domain are required for transcriptional activation, binding to mdm-2 and the adenovirus 5 E1B 55-kD protein. Genes Dev 8(10):1235-1246.
35. Lowman HB, Fairbrother WJ, Slagle PH, Kabakoff R, Liu J, Shire S, Hebert CA. 1997. Monomeric variants of IL-8: Effects of side chain substitutions and solution conditions upon dimer formation. Protein Sci 6(3):598-608.
36. Marianayagam NJ, Sunde M, Matthews JM. 2004. The power of two: Protein dimerization in biology. Trends Biochem Sci 29(11):618-625.
37. Massova I, Kollman PA. 1999. Computational alanine scanning to probe protein-protein interactions: A novel approach to evaluate binding free energies. J Am Chem Soc 121(36):8133-8143. (Pubitemid 29444447)
38. Mei G, Di Venere A, Rosato N, Finazzi-Agro A. 2005. The importance of being dimeric. FEBS J 272(1):16-27.
39. Monaghan P, Thomas BE, Woznica I, Wittelsberger A, Mierke DF, Rosenblatt M. 2008. Mapping peptide hormone-receptor interactions using a disulfide-trapping approach. Biochemistry 47(22):5889-5895.
40. Neelamegham S, Taylor AD, Shankaran H, Smith CW, Simon SI. 2000. Shear and time-dependent changes in Mac-1, LFA-1, and ICAM-3 binding regulate neutrophil homotypic adhesion. J Immunol 164(7):3798-3805.
41. Nourshargh S, Perkins JA, Showell HJ, Matsushima K, Williams TJ, Collins PD. 1992. A comparative study of the neutrophil stimulatory activity in vitro and pro-inflammatory properties in vivo of 72 amino acid and 77 amino acid IL-8. J Immunol 148(1):106-111.
42. Orr BA, Carr LM, Wittrup KD, Roy EJ, Kranz DM. 2003. Rapid method for measuring ScFv thermal stability by yeast surface display. Biotechnol Prog 19(2):631-638.
43. Pasquo A, Nardi MC, Dimasi N, Tomei L, Steinkuhler C, Delmastro P, Tramontano A, De Francesco R. 1998. Rational design and functional expression of a constitutively active single-chain NS4A-NS3 proteinase. Fold Design 3(6):433-441.
44. Pawson T, Scott JD. 1997. Signaling through scaffold, anchoring, and adaptor proteins. Science 278(5346):2075-2080.
45. Pazgier M, Liu M, Zou G, Yuan W, Li C, Li J, Monbo J, Zella D, Tarasov SG, Lu W. 2009. Structural basis for high-affinity peptide inhibition of p53 interactions with MDM2 and MDMX. Proc Natl Acad Sci USA 106(12):4665-4670.
46. Rajarathnam K, Sykes BD, Kay CM, Dewald B, Geiser T, Baggiolini M, Clark-Lewis I. 1994. Neutrophil activation by monomeric interleukin-8. Science 264(5155):90-92.
47. Rajarathnam K, Prado GN, Fernando H, Clark-Lewis I, Navarro J. 2006. Probing receptor binding activity of interleukin-8 dimer using a disulfide trap. Biochemistry 45(25):7882-7888.
48. Rao BM, Girvin AT, Ciardelli T, Lauffenburger DA, Wittrup KD. 2003. Interleukin-2 mutants with enhanced alpha-receptor subunit binding affinity. Protein Eng 16(12):1081-1087.
49. Rauchenberger R, Borges E, Thomassen-Wolf E, Rom E, Adar R, Yaniv Y, Malka M, Chumakov I, Kotzer S, Resnitzky D, et al. 2003. Human combinatorial Fab library yielding specific and functional antibodies against the human fibroblast growth factor receptor 3. J Biol Chem 278(40):38194-38205.
50. Rothe C, Urlinger S, Lohning C, Prassler J, Stark Y, Jager U, Hubner B, Bardroff M, Pradel I, Boss M, et al. 2008. The human combinatorial antibody library HuCAL GOLD combines diversification of all six CDRs according to the natural immune system with a novel display method for efficient selection of high-affinity antibodies. J Mol Biol 376(4):1182-1200.
51. Sambrook JF, Russell DW. 2001. Molecular cloning: A laboratory manual. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
52. Scholle MD, Kehoe JW, Kay BK. 2005. Efficient construction of a large collection of phage-displayed combinatorial peptide libraries. Comb Chem High Throughput Screen 8(6):545-551.
53. Schraven B, Samstag Y, Altevogt P, Meuer SC. 1990. Association of CD2 and CD45 on human T lymphocytes. Nature 345(6270):71-74.
54. Silverman AP, Levin AM, Lahti JL, Cochran JR. 2009. Engineered cystineknot peptides that bind alpha(v)beta(3) integrin with antibody-like affinities. J Mol Biol 385(4):1064-1075.
55. Takahashi TT, Austin RJ, Roberts RW. 2003. mRNA display: Ligand discovery, interaction analysis and beyond. Trends Biochem Sci 28(3):159-165.
56. Weaver-Feldhaus JM, Lou J, Coleman JR, Siegel RW, Marks JD, Feldhaus MJ. 2004. Yeast mating for combinatorial Fab library generation and surface display. FEBS Lett 564(1-2):24-34.
57. Weber KS, Donermeyer DL, Allen PM, Kranz DM. 2005. Class II-restricted T cell receptor engineered in vitro for higher affinity retains peptide specificity and function. Proc Natl Acad Sci USA 102(52):19033-19038.
58. Wu SC, Ng KK, Wong SL. 2009. Engineering monomeric streptavidin and its ligands with infinite affinity in binding but reversibility in interaction. Proteins 77(2): 404-412.
59. Zhong HZ, Carlson HA. 2005. Computational studies and peptidomimetic design for the human p53-MDM2 complex. Prot Struct Funct Bioinformatics 58(1):222-234.
60. Zondlo SC, Lee AE, Zondlo NJ. 2006. Determinants of specificity of MDM2 for the activation domains of p53 and p65: Proline27 disrupts the MDM2-binding motif of p53. Biochemistry 45(39):11945-11957.