1
|
Liu Y, Ma L, Chen WH, Park H, Ke Z, Wang B. Binding Mechanism and Synergetic Effects of Xanthone Derivatives as Noncompetitive α-Glucosidase Inhibitors: A Theoretical and Experimental Study. J Phys Chem B 2013; 117:13464-71. [DOI: 10.1021/jp4067235] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yan Liu
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry/KLGHEI of Environment and Energy Chemistry, School of Chemistry & Chemical Engineering, Sun Yat-sen University, Guangzhou 510275, PR China
| | - Lin Ma
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry/KLGHEI of Environment and Energy Chemistry, School of Chemistry & Chemical Engineering, Sun Yat-sen University, Guangzhou 510275, PR China
| | - Wen-Hua Chen
- School
of Pharmaceutical Sciences, Southern Medical University, Guangzhou 510515, PR China
| | - Hwangseo Park
- Department
of Bioscience and Biotechnology, Sejong University, 98 Kunja-Dong, Kwangjin-Ku, Seoul 143-747, Korea
| | - Zhuofeng Ke
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry/KLGHEI of Environment and Energy Chemistry, School of Chemistry & Chemical Engineering, Sun Yat-sen University, Guangzhou 510275, PR China
| | - Bo Wang
- MOE Key Laboratory of Bioinorganic and Synthetic Chemistry/KLGHEI of Environment and Energy Chemistry, School of Chemistry & Chemical Engineering, Sun Yat-sen University, Guangzhou 510275, PR China
| |
Collapse
|
2
|
Veerappan A, Cymer F, Klein N, Schneider D. The Tetrameric α-Helical Membrane Protein GlpF Unfolds via a Dimeric Folding Intermediate. Biochemistry 2011; 50:10223-30. [DOI: 10.1021/bi201266m] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Anbazhagan Veerappan
- Institut für Pharmazie
und Biochemie, Johannes Gutenberg-Universität Mainz, Johann-Joachim-Becher-Weg 30, 55128 Mainz, Germany
- Institut für Biochemie
und Molekularbiologie, ZBMZ, Albert-Ludwigs-Universität, Stefan-Meier-Strasse 17, 79104 Freiburg, Germany
| | - Florian Cymer
- Institut für Pharmazie
und Biochemie, Johannes Gutenberg-Universität Mainz, Johann-Joachim-Becher-Weg 30, 55128 Mainz, Germany
- Institut für Biochemie
und Molekularbiologie, ZBMZ, Albert-Ludwigs-Universität, Stefan-Meier-Strasse 17, 79104 Freiburg, Germany
| | - Noreen Klein
- Institut für Pharmazie
und Biochemie, Johannes Gutenberg-Universität Mainz, Johann-Joachim-Becher-Weg 30, 55128 Mainz, Germany
| | - Dirk Schneider
- Institut für Pharmazie
und Biochemie, Johannes Gutenberg-Universität Mainz, Johann-Joachim-Becher-Weg 30, 55128 Mainz, Germany
| |
Collapse
|
3
|
Rho H, Jones CN, Rose RB. Kinetic Stability May Determine the Interaction Dynamics of the Bifunctional Protein DCoH1, the Dimerization Cofactor of the Transcription Factor HNF-1α,. Biochemistry 2010; 49:10187-97. [DOI: 10.1021/bi1015056] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- H. Rho
- Department of Molecular and Structural Biochemistry, 128 Polk Hall, North Carolina State University, Raleigh, North Carolina 27695, United States
| | - C. N. Jones
- Department of Molecular and Structural Biochemistry, 128 Polk Hall, North Carolina State University, Raleigh, North Carolina 27695, United States
| | - R. B. Rose
- Department of Molecular and Structural Biochemistry, 128 Polk Hall, North Carolina State University, Raleigh, North Carolina 27695, United States
| |
Collapse
|
4
|
Pozo-Dengra J, Martínez-Rodríguez S, Contreras LM, Prieto J, Andújar-Sánchez M, Clemente-Jiménez JM, Las Heras-Vázquez FJ, Rodríguez-Vico F, Neira JL. Structure and conformational stability of a tetrameric thermostableN-succinylamino acid racemase. Biopolymers 2009; 91:757-72. [DOI: 10.1002/bip.21226] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
|
5
|
Li H, Zhao Y, Yang B. Apo-CopC and CopC-Cu(II) Unfolding Characteristics in GuHCl Solution. CHINESE J CHEM 2009. [DOI: 10.1002/cjoc.200990296] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
|
6
|
Powers SL, Robinson CR, Robinson AS. Denaturation of an extremely stable hyperthermophilic protein occurs via a dimeric intermediate. Extremophiles 2006; 11:179-89. [PMID: 17072686 DOI: 10.1007/s00792-006-0030-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2006] [Accepted: 08/04/2006] [Indexed: 11/25/2022]
Abstract
To elucidate determinants of thermostability and folding pathways of the intrinsically stable proteins from extremophilic organisms, we are studying beta-glucosidase from Pyrococcus furiosus. Using fluorescence and circular dichroism spectroscopy, we have characterized the thermostability of beta-glucosidase at 90 degrees C, the lowest temperature where full unfolding is achieved with urea. The chemical denaturation profile reveals that this homotetrameric protein unfolds at 90 degrees C with an overall DeltaG degrees of approximately 20 kcal mol(-1). The high temperatures needed to chemically denature P. furiosus beta-glucosidase and the large DeltaG degrees of unfolding at high temperatures shows this to be one of the most stable proteins yet characterized. Unfolding proceeds via a three-state pathway that includes a stable intermediate species. Stability of the native and intermediate forms is concentration dependent, and we have identified a dimeric assembly intermediate using high temperature native gel electrophoresis. Based on this data, we have developed a model for the denaturation of beta-glucosidase in which the tetramer dissociates to partially folded dimers, followed by the coupled dissociation and denaturation of the dimers to unfolded monomers. The extremely high stability is thus derived from a combination of oligomeric interactions and subunit folding.
Collapse
Affiliation(s)
- Sara Lawrence Powers
- Department of Chemical Engineering, University of Delaware, Newark, DE 19716, USA
| | | | | |
Collapse
|
7
|
Ausili A, Cobucci-Ponzano B, Di Lauro B, D'Avino R, Scirè A, Rossi M, Tanfani F, Moracci M. Structural basis of the destabilization produced by an amino-terminal tag in the β-glycosidase from the hyperthermophilic archeon Sulfolobus solfataricus. Biochimie 2006; 88:807-17. [PMID: 16494988 DOI: 10.1016/j.biochi.2006.01.009] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2005] [Accepted: 01/17/2006] [Indexed: 10/25/2022]
Abstract
We have previously shown that the major ion-pairs network of the tetrameric beta-glycosidase from the hyperthermophilic archeon Sulfolobus solfataricus involves more than 16 ion-pairs and hydrogen bonds between several residues from the four subunits and protects the protein from thermal unfolding by sewing the carboxy-termini of the enzyme. We show here that the amino-terminal of the enzyme also plays a relevant role in the thermostabilization of the protein. In fact, the addition of four extra amino acids at the amino-terminal of the beta-glycosidase, though not affecting the catalytic machinery of the enzyme and its thermophilicity, produced a faster enzyme inactivation in the temperature range 85-95 degrees C and decreased the Tm of the protein of 6 degrees C, measured by infrared spectroscopy. In addition, detailed two-dimensional IR correlation analysis revealed that the quaternary structure of the tagged enzyme is destabilized at 85 degrees C whilst that of the wild type enzyme is stable up to 98 degrees C. Molecular models allowed the rationalization of the experimental data indicating that the longer amino-terminal tail may destabilize the beta-glycosidase by enhancing the molecular fraying of the polypeptide and loosening the dimeric interfaces. The data support the hypothesis that fraying of the polypeptide chain termini is a relevant event in protein unfolding.
Collapse
Affiliation(s)
- A Ausili
- Institute of Biochemistry, Università Politecnica delle Marche, Via Ranieri, 60131 Ancona, Italy
| | | | | | | | | | | | | | | |
Collapse
|
8
|
Ausili A, Di Lauro B, Cobucci-Ponzano B, Bertoli E, Scirè A, Rossi M, Tanfani F, Moracci M. Two-dimensional IR correlation spectroscopy of mutants of the beta-glycosidase from the hyperthermophilic archaeon Sulfolobus solfataricus identifies the mechanism of quaternary structure stabilization and unravels the sequence of thermal unfolding events. Biochem J 2005; 384:69-78. [PMID: 15283674 PMCID: PMC1134089 DOI: 10.1042/bj20040646] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Beta-glycosidase from the hyperthermophilic archaeon Sulfolobus solfataricus is a homotetramer with a higher number of ion pairs compared with mesophilic glycoside hydrolases. The ion pairs are arranged in large networks located mainly at the tetrameric interface of the molecule. In the present study, the structure and thermal stability of the wild-type beta-glycosidase and of three mutants in residues R488 and H489 involved in the C-terminal ionic network were examined by FTIR (Fourier-transform IR) spectroscopy. The FTIR data revealed small differences in the secondary structure of the proteins and showed a lower thermostability of the mutant proteins with respect to the wild-type. Generalized 2D-IR (two-dimensional IR correlation spectroscopy) at different temperatures showed different sequences of thermal unfolding events in the mutants with respect to the wild-type, indicating that punctual mutations affect the unfolding and aggregation process of the protein. A detailed 2D-IR analysis of synchronous maps of the proteins allowed us to identify the temperatures at which the ionic network that stabilizes the quaternary structure of the native and mutant enzymes at the C-terminal breaks down. This evidence gives support to the current theories on the mechanism of ion-pair stabilization in proteins from hyperthermophilic organisms.
Collapse
Affiliation(s)
- Alessio Ausili
- *Institute of Biochemistry, Faculty of Sciences, Università Politecnica delle Marche, Via Ranieri, 60131 Ancona, Italy
| | - Barbara Di Lauro
- †Institute of Protein Biochemistry, CNR, Via P. Castellino 111, 80131 Naples, Italy
| | | | - Enrico Bertoli
- *Institute of Biochemistry, Faculty of Sciences, Università Politecnica delle Marche, Via Ranieri, 60131 Ancona, Italy
- ‡Faculty of Medicine, Università Politecnica delle Marche, Via Ranieri, 60131 Ancona, Italy
| | - Andrea Scirè
- *Institute of Biochemistry, Faculty of Sciences, Università Politecnica delle Marche, Via Ranieri, 60131 Ancona, Italy
| | - Mosè Rossi
- †Institute of Protein Biochemistry, CNR, Via P. Castellino 111, 80131 Naples, Italy
- §Department of Biological Chemistry, University of Naples “Federico II”, Via Mezzocannone 16, 80134 Naples, Italy
| | - Fabio Tanfani
- *Institute of Biochemistry, Faculty of Sciences, Università Politecnica delle Marche, Via Ranieri, 60131 Ancona, Italy
- To whom correspondence should be addressed (email )
| | - Marco Moracci
- †Institute of Protein Biochemistry, CNR, Via P. Castellino 111, 80131 Naples, Italy
| |
Collapse
|
9
|
Kaper T, Brouns SJJ, Geerling ACM, De Vos WM, Van der Oost J. DNA family shuffling of hyperthermostable beta-glycosidases. Biochem J 2002; 368:461-70. [PMID: 12164784 PMCID: PMC1222993 DOI: 10.1042/bj20020726] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2002] [Revised: 07/16/2002] [Accepted: 08/06/2002] [Indexed: 11/17/2022]
Abstract
The structural compatibility of two hyperthermostable family 1 glycoside hydrolases, Pyrococcus furiosus CelB and Sulfolobus solfataricus LacS, as well as their kinetic potential were studied by construction of a library of 2048 hybrid beta-glycosidases using DNA family shuffling. The hybrids were tested for their thermostability, ability to hydrolyse lactose and sensitivity towards inhibition by glucose. Three screening rounds at 70 degrees C led to the isolation of three high-performance hybrid enzymes (hybrid 11, 18 and 20) that had 1.5-3.5-fold and 3.5-8.6-fold increased lactose hydrolysis rates compared with parental CelB and LacS respectively. The three variants were the result of a single crossover event, which gave rise to hybrids with a LacS N-terminus and a main CelB sequence. Constructed three-dimensional models of the hybrid enzymes revealed that the catalytic (betaalpha)(8)-barrel was composed of both LacS and CelB elements. In addition, an extra intersubunit hydrogen bond in hybrids 18 and 20 might explain their superior stability over hybrid 11. This study demonstrates that extremely thermostable enzymes with limited homology and different mechanisms of stabilization can be efficiently shuffled to form stable hybrids with improved catalytic features.
Collapse
Affiliation(s)
- Thijs Kaper
- Laboratory of Microbiology, Wageningen University, Hessenlink van Suchtelenweg 4, NL-6703 CT Wageningen, The Netherlands
| | | | | | | | | |
Collapse
|
10
|
Cobucci-Ponzano B, Moracci M, Di Lauro B, Ciaramella M, D'Avino R, Rossi M. Ionic network at the C-terminus of the beta-glycosidase from the hyperthermophilic archaeon Sulfolobus solfataricus: Functional role in the quaternary structure thermal stabilization. Proteins 2002; 48:98-106. [PMID: 12012341 DOI: 10.1002/prot.10128] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
Biochemical, crystallographic, and computational data support the hypothesis that electrostatic interactions are among the dominant forces in stabilizing hyperthermophilic proteins. The thermostable beta-glycosidase from the hyperthermophile Sulfolobus solfataricus (Ssbeta-gly) is an interesting model system for the study of protein adaptation to high temperatures. The largest ion-pair network of Ssbeta-gly is located at the tetrameric interface of the molecule; in this paper, key residues in this region were modified by site-directed mutagenesis and the stability of the mutants was analyzed by kinetics of thermal denaturation. All mutations produced faster enzyme inactivation, suggesting that the C-terminal ionic network prevents the dissociation into monomers, which is the limiting step in the mechanism of Ssbeta-gly inactivation. Moreover, the calculated reaction order showed that the mechanism of inactivation depends on the mutation introduced, suggesting that intermediates maintaining enzymatic activity are produced during the inactivation transition of some, but not all, mutants. Molecular models of each mutant allow us to rationalize the experimental evidence and give support to the current theories on the mechanism of ion pair stabilization in proteins from hyperthermophiles.
Collapse
|
11
|
Sacchetta P, Di Rado R, Saliola M, Bozzi A, Falcone C, Di Ilio C, Martini F. Multiple unfolded states of alcohol dehydrogenase I from Kluyveromyces lactis by guanidinium chloride. BIOCHIMICA ET BIOPHYSICA ACTA 2001; 1545:238-44. [PMID: 11342049 DOI: 10.1016/s0167-4838(00)00283-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Inactivation, dissociation, and unfolding of tetrameric alcohol dehydrogenase I from Kluyveromyces lactis (KlADH I) were investigated using guanidinium chloride (GdmCl) as denaturant. Protein transitions were monitored by enzyme activity, intrinsic fluorescence and gel filtration chromatography. At low denaturant concentrations (less than 0.3 M), reversible transformation of enzyme into tetrameric inactive form occurs. At denaturant concentrations between 0.3 and 0.5 M, the enzyme progressively dissociates into structured monomers through an irreversible reaction. At higher denaturant concentrations, the monomers unfold completely. Refolding studies indicate that a total reactivation occurs only with the enzyme denatured between 0 and 0.3 M GdmCl concentrations. The enzyme denatured at GdmCl concentrations higher than 0.3 M refolds only partially. All together, our results indicate that unfolding of the KlADH I is a multistep process, i.e., inactivation of the structured tetramer, dissociation into partially structured monomers, followed by complete unfolding.
Collapse
Affiliation(s)
- P Sacchetta
- Department of Biomedical Sciences, University "G. D'Annunzio", Chieti, Italy
| | | | | | | | | | | | | |
Collapse
|
12
|
Yuan C, Xie ZQ, Zhang FW, Xu GJ. Association and activation of fructose 1,6-bisphosphase during unfolding and refolding: spectroscopic and enzymatic studies. JOURNAL OF PROTEIN CHEMISTRY 2001; 20:39-47. [PMID: 11330347 DOI: 10.1023/a:1011053020657] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Fructose 1,6-biphosphase is a well-characterized oligomer enzyme, and many effectors allosterically control its activity. In this report, we compared the activity, allosteric properties, and conformational changes in its denaturant-induced unfolding processes. In addition, a trpytophan residue has been introduced into the interface between the C1 and C2 subunits to investigate conformational changes during unfolding. Results show that the denaturation curves of WT FruP2ase detected by various methods do not agree, and the dissociation occurs first with a monomeric form existing around 0.4 M GdmCl as shown by gel filtration. The dissociation of all mutants is accompanied by changes in fluorescence intensity. The results suggest that the unfolding of FruP2ase is a complicated, multiphase process. The activation of FruP2ase by GdmCl at low concentrations can be interpreted as a consequence of the effect of monovalent cation. In the refolding experiments, it is found that Mg2+ is not only essential for enzyme activity, but also can assist the enzyme in refolding and association by preventing the formation of aggregates.
Collapse
Affiliation(s)
- C Yuan
- Shanghai Institutes of Life Sciences, Chinese Academy of Sciences
| | | | | | | |
Collapse
|
13
|
D'Auria S, Nucci R, Rossi M, Gryczynski I, Gryczynski Z, Lakowicz JR. The beta-glycosidase from the hyperthermophilic archaeon Sulfolobus solfataricus: enzyme activity and conformational dynamics at temperatures above 100 degrees C. Biophys Chem 1999; 81:23-31. [PMID: 10520250 DOI: 10.1016/s0301-4622(99)00086-1] [Citation(s) in RCA: 32] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Enzymes from thermophilic organisms are stable and active at temperatures which rapidly denature mesophilic proteins. However, there is not yet a complete understanding of the structural basis of their thermostability and thermoactivity since for each protein there seems to exist special networks of interactions that make it stable under the desired conditions. Here we have investigated the activity and conformational dynamics above 100 degrees C of the beta-glycosidase isolated from the hyperthermophilic archaeon Sulfolobus solfataricus. This has been made possible using a special stainless steel optical pressure cell which allowed us to perform enzyme assays and fluorescence measurements up to 160 degrees C without boiling the sample. The beta-glycosidase from S. solfataricus showed maximal activity at 125 degrees C. The time-resolved fluorescence studies showed that the intrinsic tryptophanyl fluorescence emission of the protein was represented by a bimodal distribution with Lorential shape and that temperature strongly affected the protein conformational dynamics. Remarkably, the tryptophan emission reveals that the indolic residues remain shielded from the solvent even at 125 degrees C, as shown by shielding from quenching and restricted tryptophan solubility. The relationship between enzyme activity and protein structural dynamics is discussed.
Collapse
Affiliation(s)
- S D'Auria
- Institute of Protein Biochemistry and Enzymology, C.N.R., Napoli, Italy
| | | | | | | | | | | |
Collapse
|