Structure of an engineered β-lactamase maltose binding protein fusion protein: Insights into heterotropic allosteric regulation

PLoS ONE

Volumn 7, Issue 6, 2012, Pages

  Ke, Wei ^a   Laurent, Abigail H ^b   Armstrong, Morgan D ^b   Chen, Yuchao ^b   Smith, William E ^b   Liang, Jing ^b   Wright, Chapman M ^b   Ostermeier, Marc ^b   van den Akker, Focco ^a  

^a CASE WESTERN RESERVE UNIVERSITY   (United States)

^b Johns Hopkins University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA LACTAMASE TEM 1; HYBRID PROTEIN; MALTOSE; MALTOSE BINDING PROTEIN; PROTEIN RG13; UNCLASSIFIED DRUG; ZINC ION;

ALLOSTERISM; ARTICLE; CONCENTRATION (PARAMETERS); CONTROLLED STUDY; CRYSTALLIZATION; ENZYME ACTIVE SITE; ESCHERICHIA COLI; INHIBITION KINETICS; MOLECULAR MODEL; MUTAGENESIS; NONHUMAN; PROTEIN BINDING; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN PURIFICATION; PROTEIN STRUCTURE;

ALLOSTERIC REGULATION; BETA-LACTAMASES; MALTOSE-BINDING PROTEINS; MODELS, MOLECULAR; PROTEIN CONFORMATION; PROTEIN ENGINEERING;

EID: 84862259714     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0039168     Document Type: Article

References (37)

1. Swain JF, Gierasch LM, (2006) The changing landscape of protein allostery. Curr Opin Struct Biol 16: 102-108.
2. Guntas G, Mansell TJ, Kim JR, Ostermeier M, (2005) Directed evolution of protein switches and their application to the creation of ligand-binding proteins. Proc Natl Acad Sci U S A 102: 11224-11229.
3. Koide S, (2009) Generation of new protein functions by nonhomologous combinations and rearrangements of domains and modules. Curr Opin Biotechnol 20: 398-404.
4. Ferraz RM, Vera A, Aris A, Villaverde A, (2006) Insertional protein engineering for analytical molecular sensing. Microb Cell Fact 5: 15.
5. Guntas G, Mitchell SF, Ostermeier M, (2004) A molecular switch created by in vitro recombination of nonhomologous genes. Chem Biol 11: 1483-1487.
6. Liang J, Kim JR, Boock JT, Mansell TJ, Ostermeier M, (2007) Ligand binding and allostery can emerge simultaneously. Protein Sci 16: 929-937.
7. Kim JR, Ostermeier M, (2006) Modulation of effector affinity by hinge region mutations also modulates switching activity in an engineered allosteric TEM1 beta-lactamase switch. Arch Biochem Biophys 446: 44-51.
8. Wright CM, Majumdar A, Tolman JR, Ostermeier M, (2010) NMR characterization of an engineered domain fusion between maltose binding protein and TEM1 beta-lactamase provides insight into its structure and allosteric mechanism. Proteins 78: 1423-1430.
9. Quiocho FA, Spurlino JC, Rodseth LE, (1997) Extensive features of tight oligosaccharide binding revealed in high-resolution structures of the maltodextrin transport/chemosensory receptor. Structure 5: 997-1015.
10. Emsley P, Cowtan K, (2004) Coot: model-building tools for molecular graphics. Acta Crystallogr D Biol Crystallogr 60: 2126-2132.
11. Lenfant F, Labia R, Masson JM, (1991) Replacement of lysine 234 affects transition state stabilization in the active site of beta-lactamase TEM1. J Biol Chem 266: 17187-17194.
12. Thomson JM, Distler AM, Prati F, Bonomo RA, (2006) Probing active site chemistry in SHV beta-lactamase variants at Ambler position 244. Understanding unique properties of inhibitor resistance. J Biol Chem 281: 26734-26744.
13. Huang W, Petrosino J, Hirsch M, Shenkin PS, Palzkill T, (1996) Amino acid sequence determinants of beta-lactamase structure and activity. J Mol Biol 258: 688-703.
14. Jin L, Abrahams JP, Skinner R, Petitou M, Pike RN, et al. (1997) The anticoagulant activation of antithrombin by heparin. Proc Natl Acad Sci U S A 94: 14683-14688.
15. Schreuder HA, de Boer B, Dijkema R, Mulders J, Theunissen HJ, et al. (1994) The intact and cleaved human antithrombin III complex as a model for serpin-proteinase interactions. Nat Struct Biol 1: 48-54.
16. Ellerby LM, Escobar WA, Fink AL, Mitchinson C, Wells JA, (1990) The role of lysine-234 in beta-lactamase catalysis probed by site-directed mutagenesis. Biochemistry 29: 5797-5806.
17. Totir MA, Padayatti PS, Helfand MS, Carey MP, Bonomo RA, et al. (2006) Effect of the Inhibitor-Resistant M69V Substitution on the Structures and Populations of trans-Enamine beta-Lactamase Intermediates. Biochemistry 45: 11895-11904.
18. Helfand MS, Hujer AM, Sonnichsen FD, Bonomo RA, (2002) Unexpected advanced generation cephalosporinase activity of the M69F variant of SHV beta-lactamase. J Biol Chem 277: 47719-47723.
19. Adachi H, Ohta T, Matsuzawa H, (1991) Site-directed mutants, at position 166, of RTEM-1 beta-lactamase that form a stable acyl-enzyme intermediate with penicillin. J Biol Chem 266: 3186-3191.
20. Saves I, Burlet-Schiltz O, Maveyraud L, Samama JP, Prome JC, et al. (1995) Mass spectral kinetic study of acylation and deacylation during the hydrolysis of penicillins and cefotaxime by beta-lactamase TEM-1 and the G238S mutant. Biochemistry 34: 11660-11667.
21. Sampson JM, Ke W, Bethel CR, Pagadala SR, Nottingham MD, et al. (2011) Ligand-dependent disorder of {Omega} loop observed in extended-spectrum SHV-type {beta}-lactamase. Antimicrob Agents Chemother.
22. Edwards WR, Busse K, Allemann RK, Jones DD, (2008) Linking the functions of unrelated proteins using a novel directed evolution domain insertion method. Nucleic Acids Res 36: e78.
23. Edwards WR, Williams AJ, Morris JL, Baldwin AJ, Allemann RK, et al. (2010) Regulation of beta-lactamase activity by remote binding of heme: functional coupling of unrelated proteins through domain insertion. Biochemistry 49: 6541-6549.
24. Hammes GG, Chang YC, Oas TG, (2009) Conformational selection or induced fit: a flux description of reaction mechanism. Proc Natl Acad Sci U S A 106: 13737-13741.
25. Auld DS, (2001) Zinc coordination sphere in biochemical zinc sites. Biometals 14: 271-313.
26. Higaki JN, Haymore BL, Chen S, Fletterick RJ, Craik CS, (1990) Regulation of serine protease activity by an engineered metal switch. Biochemistry 29: 8582-8586.
27. Greene AC, Trent AM, Bachand GD, (2008) Controlling kinesin motor proteins in nanoengineered systems through a metal-binding on/off switch. Biotechnol Bioeng 101: 478-486.
28. Suetomi K, Rojo D, Navarro J, (2002) Identification of a signal transduction switch in the chemokine receptor CXCR1. J Biol Chem 277: 31563-31566.
29. Schmidt AM, Muller HN, Skerra A, (1996) A Zn(II)-binding site engineered into retinol-binding protein exhibits metal-ion specificity and allows highly efficient affinity purification with a newly designed metal ligand. Chem Biol 3: 645-653.
30. Telmer PG, Shilton BH, (2005) Structural studies of an engineered zinc biosensor reveal an unanticipated mode of zinc binding. J Mol Biol 354: 829-840.
31. Minor W, Tomchick D, Otwinowski Z, (2000) Strategies for macromolecular synchrotron crystallography. Structure 8: R105-R110.
32. Otwinowski Z, Minor W, (1997) Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol 276: 307-326.
33. McCoy AJ, Grosse-Kunstleve RW, Adams PD, Winn MD, Storoni LC, et al. (2007) Phaser crystallographic software. J Appl Crystallogr 40: 658-674.
34. Murshudov GN, Vagin AA, Dodson EJ, (1997) Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr D Biol Crystallogr 53: 240-255.
35. Brunger AT, Adams PD, Clore GM, DeLano WL, Gros P, et al. (1998) Crystallography & NMR system: A new software suite for macromolecular structure determination. Acta Crystallogr D 54: 905-921.
36. Laskowski RA, MacArthur MW, Moss DS, Thornton JM, (2001) PROCHECK- a program to check the stereochemical quality of protein structures. J Appl Cryst 26: 283-291.
37. van den Akker F, Hol WG, (1999) Difference density quality (DDQ): a method to assess the global and local correctness of macromolecular crystal structures. Acta Crystallogr D Biol Crystallogr 55 (Pt 1): 206-218.