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Wang X, Pan M, Shi Z, Yu D, Huang F. Protein Nanobarrel for Integrating Chlorophyll a Molecules and Its Photochemical Performance. ACS APPLIED BIO MATERIALS 2021; 4:399-405. [PMID: 35014291 DOI: 10.1021/acsabm.0c00208] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Taking inspiration from biology's effectiveness in nanoscale organization of chlorophylls for photosynthesis, we describe here a design for chlorophyll-protein conjugates that exploits the central hydrophobic cavity of GroEL protein nanobarrel as a binding pocket for chlorophyll. We found water-soluble conjugates of chlorophyll with GroEL could be easily generated via detergent dialysis. The number of chlorophyll units bound to GroEL is tunable by varying the equilibrium concentration of chlorophyll during dialysis. Meanwhile, it is shown that an increase in the entrapped chlorophyll amount leads to an improvement of chlorophyll-GroEL photostability. Using methyl viologen as an electron acceptor, we demonstrate that chlorophyll-GroEL has photoreduction activity, which is also switchable in on/off illumination mode. Finally, it is shown that chlorophyll-GroEL-sensitized solar cells have good photoelectric properties, yielding a high photoelectric conversion efficiency of ∼0.9%. The current strategy may be adopted for integrating other photosensitizing dyes or for other photocatalytic reactions.
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Affiliation(s)
- Xiaoqiang Wang
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Meihong Pan
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Zhuang Shi
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Daoyong Yu
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Fang Huang
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
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2
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Protein-caged zinc porphyrin as a carbonic anhydrase mimic for carbon dioxide capture. Sci Rep 2020; 10:19581. [PMID: 33177642 PMCID: PMC7659338 DOI: 10.1038/s41598-020-76482-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2020] [Accepted: 10/16/2020] [Indexed: 11/29/2022] Open
Abstract
Zinc tetraphenylporphyrin (Zn-TPP) solubilized by GroEL protein cage was prepared as a supramolecular mimic of carbonic anhydrase (CA) for CO2 capture. It is shown that the soluble Zn-TPP-GroEL complex can be formed easily by detergent dialysis. The Zn-TPP/GroEL binding ratio was found to increase with their dialysis ratio until reaching the maximum of about 30 porphyrins per protein cage. Moreover, the complex showed hydrase activity that catalyzes the CO2 hydration in HCO3− and H+. It is further seen that the catalytic activity of Zn-TPP-GroEL was about one-half of that of a bovine CA at 25 °C. On the other hand, as the temperature was increased to 60 °C close to an industrial CO2 absorption temperature, the natural enzyme lost function while Zn-TPP-GroEL exhibited better catalytic performance indicative of a higher thermal stability. Finally, we demonstrate that the GroEL-solubilized Zn-TPP is able to accelerate the precipitation of CO2 in the form of CaCO3 and has better long-term performance than the bovine CA. Thus a new type of nano-caged system mimicking natural CAs for potential applications in carbon capture has been established.
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3
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Xu B, Liu C, Sun H, Wang X, Huang F. Highly Surface-Active Chaperonin Nanobarrels for Oil-in-Water Pickering Emulsions and Delivery of Lipophilic Compounds. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:10155-10164. [PMID: 31433944 DOI: 10.1021/acs.jafc.9b02379] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Stabilization of Pickering emulsions via particles of biological origin exhibits a great potential to be widely applied in food, cosmetic, or biomedicine formulation because of their excellent biocompatibility, biodegradability, and functional properties. This paper describes the successful development of a bioderived GroEL protein nanobarrel as a Pickering stabilizer and its protective properties on β-carotene in dispersed oil phase, as a model of labile bioactive compounds. It is shown that the GroEL nanobarrel is highly surface-active and allows the formation of Pickering emulsion by physical adsorption at the oil/water interface. The optimized formulation for generating a stable submicron oil droplet by ultrasonication includes a GroEL concentration of 0.05-0.45 wt % with an oil/water volume ratio of 0.05-0.35. The as-prepared Pickering emulsion shows pH-responsive emulsification/demulsification transition and excellent stability at temperatures less than 65 °C and ionic strength (with NaCl addition) up to 500 mM. Meanwhile, the emulsion tends to form a gel-like network structure with the oil/water ratio increasing. Finally, we demonstrate that possible factors of oxidant, reducing agent, UV radiation, and sucrose have sequentially decreasing to no effect on the stability of β-carotene encapsulated in GroEL-stabilized Pickering emulsion and that higher GroEL concentration can significantly reduce β-carotene degradation rate, thus ensuring more efficient long-term storage. We believe that the emulsion system supported by the GroEL nanobarrel could be developed to a viable tool for delivering lipophilic bioactive compounds.
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Affiliation(s)
- Baomei Xu
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering , China University of Petroleum (East China) , Qingdao 266580 , P.R. China
| | - Chengkun Liu
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering , China University of Petroleum (East China) , Qingdao 266580 , P.R. China
| | - Haiyan Sun
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering , China University of Petroleum (East China) , Qingdao 266580 , P.R. China
| | - Xiaoqiang Wang
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering , China University of Petroleum (East China) , Qingdao 266580 , P.R. China
| | - Fang Huang
- State Key Laboratory of Heavy Oil Processing, College of Chemical Engineering , China University of Petroleum (East China) , Qingdao 266580 , P.R. China
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4
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Puri S, Chaudhuri TK. Inter and intra-subunit interactions at the subunit interface of chaperonin GroEL are essential for its stability and assembly. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2019; 1867:331-343. [PMID: 30661519 DOI: 10.1016/j.bbapap.2018.10.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Revised: 10/13/2018] [Accepted: 10/18/2018] [Indexed: 10/28/2022]
Abstract
Chaperonin GroEL helps in the folding of substrate proteins under normal and stress conditions. Although it remains stable and functional during stress conditions, the quantitative estimation of stability parameters and the specific amino-acid residues playing a role in its stability are not known in sufficient detail. The reason for poor understanding is its large size, multimeric nature, and irreversible unfolding process. The X-ray crystal structure reveals that equatorial domain forms almost all intra and inter-subunit interactions for assembly of GroEL. Considering all these facts, we adopted alternate strategies to use monomeric GroEL, native GroEL and equatorial domain mutants (GroELK4E/GroELD523K/GroELD473C) to study the assembly and stability of GroEL. Loss of inter-subunit interaction involving K4 residue of one subunit and E59, I60, E61, I62 residues of adjacent subunit due to K4E mutation affect the oligomerization efficiency of GroEL subunits while the equilibrium unfolding studies on wild-type monomeric GroEL, native GroEL, and the selected mutants together demonstrate that intra-subunit interactions involving K4 and D523 of the same subunit play a critical role in the thermodynamic stability of both native and monomeric GroEL without affecting the oligomerization of subunits. The stability order between the GroELwild-type(M) and its variants is GroELwild-type(M) ≥ GroELD473C(M)˃GroELD523K(M)˃GroELK4E.
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Affiliation(s)
- Sarita Puri
- Kusuma School of Biological Sciences, Indian Institute of Technology Delhi, Hauz Khas, New Delhi, 110016, India
| | - Tapan K Chaudhuri
- Kusuma School of Biological Sciences, Indian Institute of Technology Delhi, Hauz Khas, New Delhi, 110016, India.
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5
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Arai M. Unified understanding of folding and binding mechanisms of globular and intrinsically disordered proteins. Biophys Rev 2018; 10:163-181. [PMID: 29307002 PMCID: PMC5899706 DOI: 10.1007/s12551-017-0346-7] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2017] [Accepted: 11/13/2017] [Indexed: 12/18/2022] Open
Abstract
Extensive experimental and theoretical studies have advanced our understanding of the mechanisms of folding and binding of globular proteins, and coupled folding and binding of intrinsically disordered proteins (IDPs). The forces responsible for conformational changes and binding are common in both proteins; however, these mechanisms have been separately discussed. Here, we attempt to integrate the mechanisms of coupled folding and binding of IDPs, folding of small and multi-subdomain proteins, folding of multimeric proteins, and ligand binding of globular proteins in terms of conformational selection and induced-fit mechanisms as well as the nucleation–condensation mechanism that is intermediate between them. Accumulating evidence has shown that both the rate of conformational change and apparent rate of binding between interacting elements can determine reaction mechanisms. Coupled folding and binding of IDPs occurs mainly by induced-fit because of the slow folding in the free form, while ligand binding of globular proteins occurs mainly by conformational selection because of rapid conformational change. Protein folding can be regarded as the binding of intramolecular segments accompanied by secondary structure formation. Multi-subdomain proteins fold mainly by the induced-fit (hydrophobic collapse) mechanism, as the connection of interacting segments enhances the binding (compaction) rate. Fewer hydrophobic residues in small proteins reduce the intramolecular binding rate, resulting in the nucleation–condensation mechanism. Thus, the folding and binding of globular proteins and IDPs obey the same general principle, suggesting that the coarse-grained, statistical mechanical model of protein folding is promising for a unified theoretical description of all mechanisms.
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Affiliation(s)
- Munehito Arai
- Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, 3-8-1 Komaba, Meguro, Tokyo, 153-8902, Japan.
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6
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Wälti MA, Clore GM. Disassembly/reassembly strategy for the production of highly pure GroEL, a tetradecameric supramolecular machine, suitable for quantitative NMR, EPR and mutational studies. Protein Expr Purif 2017; 142:8-15. [PMID: 28951283 DOI: 10.1016/j.pep.2017.09.010] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2017] [Revised: 09/20/2017] [Accepted: 09/20/2017] [Indexed: 11/20/2022]
Abstract
GroEL, a prototypical member of the chaperonin class of chaperones, is a large supramocular machine that assists protein folding and plays an important role in proteostasis. GroEL comprises two heptameric rings, each of which encloses a large cavity that provides a folding chamber for protein substrates. Many questions remain regarding the mechanistic details of GroEL facilitated protein folding. Thus, data at atomic resolution of the type provided by NMR and EPR are invaluable. Such studies often require complete deuteration of GroEL, uniform or residue specific 13C and 15N isotope labeling, and the introduction of selective cysteine mutations for site-specific spin labeling. In addition, high purity GroEL is essential for detailed studies of substrate-GroEL interactions as quantitative interpretation is impossible if the cavities are already occupied and blocked by other protein substrates present in the bacterial expression system. Here we present a new purification protocol designed to provide highly pure GroEL devoid of non-specific protein substrate contamination.
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Affiliation(s)
- Marielle A Wälti
- Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892-0520, United States
| | - G Marius Clore
- Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892-0520, United States.
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7
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Puri S, Chaudhuri TK. Folding and unfolding pathway of chaperonin GroEL monomer and elucidation of thermodynamic parameters. Int J Biol Macromol 2016; 96:713-726. [PMID: 28017766 DOI: 10.1016/j.ijbiomac.2016.12.054] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2016] [Revised: 12/12/2016] [Accepted: 12/19/2016] [Indexed: 10/20/2022]
Abstract
The conformation and thermodynamic stability of monomeric GroEL were studied by CD and fluorescence spectroscopy. GroEL denaturation with urea and dilution in buffer leads to formation of a folded GroEL monomer. The monomeric nature of this protein was verified by size-exclusion chromatography and native PAGE. It has a well-defined secondary and tertiary structure, folding activity (prevention of aggregation) for substrate protein and is resistant to proteolysis. Being a properly folded and reversibly refoldable, monomeric GroEL is amenable for the study of thermodynamic stability by unfolding transition methods. We present the equilibrium unfolding of monomeric GroEL as studied by urea and heat mediated unfolding processes. The urea mediated unfolding shows two transitions and a single transition in the heat mediated unfolding process. In the case of thermal unfolding, some residual structure unfolds at a higher temperature (70-75°C). The process of folding/unfolding is reversible in both cases. Analysis of folding/unfolding data provides a measure of ΔGNUH2O, Tm, ΔHvan and ΔSvan of monomeric GroEL. The thermodynamic stability parameter ΔGNUH2O is similar with both CD and intrinsic fluorescence i.e. 7.10±1.0kcal/mol. The calculated Tm, ΔHvan and ΔSvan from the thermal unfolding transition is 46±0.5°C, 43.3±0.1kcal/mol and 143.9±0.1cal/mol/k respectively.
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Affiliation(s)
- Sarita Puri
- From Kusuma School of Biological Sciences, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Tapan K Chaudhuri
- From Kusuma School of Biological Sciences, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India.
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8
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Marchenko NY, Sikorskaya E, Marchenkov V, Kashparov I, Semisotnov G. Affinity chromatography of chaperones based on denatured proteins: Analysis of cell lysates of different origin. Protein Expr Purif 2016; 119:117-23. [DOI: 10.1016/j.pep.2015.11.020] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 11/19/2015] [Accepted: 11/24/2015] [Indexed: 11/29/2022]
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9
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Stability and disassembly properties of human naïve Hsp60 and bacterial GroEL chaperonins. Biophys Chem 2015; 208:68-75. [PMID: 26259786 DOI: 10.1016/j.bpc.2015.07.006] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2015] [Revised: 07/17/2015] [Accepted: 07/19/2015] [Indexed: 02/03/2023]
Abstract
Human Hsp60 chaperonin and its bacterial homolog GroEL, in association with the corresponding co-chaperonins Hsp10 and GroES, constitute important chaperone systems promoting the proper folding of several mitochondrial proteins. Hsp60 is also currently described as a ubiquitous molecule with multiple roles both in health conditions and in several diseases. Naïve Hsp60 bearing the mitochondrial import signal has been recently demonstrated to present different oligomeric organizations with respect to GroEL, suggesting new possible physiological functions. Here we present a combined investigation with circular dichroism and small-angle X-ray scattering of structure, self-organization, and stability of naïve Hsp60 in solution in comparison with bacterial GroEL. Experiments have been performed in different concentrations of guanidine hydrochloride, monitoring the dissociation of tetradecamers into heptamers and monomers, until unfolding. GroEL is proved to be more stable with respect to Hsp60, and the unfolding free energy as well as its dependence on denaturant concentration is obtained.
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10
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Spinello A, Ortore MG, Spinozzi F, Ricci C, Barone G, Gammazza AM, Piccionello AP. Quaternary structures of GroEL and naïve-Hsp60 chaperonins in solution: a combined SAXS-MD study. RSC Adv 2015. [DOI: 10.1039/c5ra05144d] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Analysis with QUAFIT software combined with SAXS-MD data, allows resolution of GroEL and naïve-Hsp60 oligomeric structures in solution.
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Affiliation(s)
- A. Spinello
- Dipartimento di Scienze e Tecnologie Biologiche
- 90128 Palermo
- Italy
- Istituto EuroMediterraneo di Scienza e Tecnologia-IEMEST
- 90139 Palermo
| | - M. G. Ortore
- Dipartimento DiSVA
- Università Politecnica delle Marche
- 60131 Ancona
- Italy
| | - F. Spinozzi
- Dipartimento DiSVA
- Università Politecnica delle Marche
- 60131 Ancona
- Italy
| | - C. Ricci
- Dipartimento DiSVA
- Università Politecnica delle Marche
- 60131 Ancona
- Italy
| | - G. Barone
- Dipartimento di Scienze e Tecnologie Biologiche
- 90128 Palermo
- Italy
- Istituto EuroMediterraneo di Scienza e Tecnologia-IEMEST
- 90139 Palermo
| | - A. Marino Gammazza
- Dipartimento di Scienze e Tecnologie Biologiche
- 90128 Palermo
- Italy
- Istituto EuroMediterraneo di Scienza e Tecnologia-IEMEST
- 90139 Palermo
| | - A. Palumbo Piccionello
- Dipartimento di Scienze e Tecnologie Biologiche
- 90128 Palermo
- Italy
- Istituto EuroMediterraneo di Scienza e Tecnologia-IEMEST
- 90139 Palermo
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11
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Ryabova NA, Marchenkov VV, Marchenkova SY, Kotova NV, Semisotnov GV. Molecular chaperone GroEL/ES: unfolding and refolding processes. BIOCHEMISTRY (MOSCOW) 2014; 78:1405-14. [PMID: 24490731 DOI: 10.1134/s0006297913130038] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Molecular chaperones are a special class of heat shock proteins (Hsp) that assist the folding and formation of the quaternary structure of other proteins both in vivo and in vitro. However, some chaperones are complex oligomeric proteins, and one of the intriguing questions is how the chaperones fold. The representatives of the Escherichia coli chaperone system GroEL (Hsp60) and GroES (Hsp10) have been studied most intensively. GroEL consists of 14 identical subunits combined into two interacting ring-like structures of seven subunits each, while the co-chaperone GroES interacting with GroEL consists of seven identical subunits combined into a dome-like oligomeric structure. In spite of their complex quaternary structure, GroEL and GroES fold well both in vivo and in vitro. However, the specific oligomerization of GroEL subunits is dependent on ligands and external conditions. This review analyzes the literature and our own data on the study of unfolding (denaturation) and refolding (renaturation) processes of these molecular chaperones and the effect of ligands and solvent composition. Such analysis seems to be useful for understanding the folding mechanism not only of the GroEL/GroES complex, but also of other oligomeric protein complexes.
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Affiliation(s)
- N A Ryabova
- Institute of Protein Research, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia.
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12
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Vilasi S, Carrotta R, Mangione MR, Campanella C, Librizzi F, Randazzo L, Martorana V, Marino Gammazza A, Ortore MG, Vilasi A, Pocsfalvi G, Burgio G, Corona D, Palumbo Piccionello A, Zummo G, Bulone D, Conway de Macario E, Macario AJL, San Biagio PL, Cappello F. Human Hsp60 with its mitochondrial import signal occurs in solution as heptamers and tetradecamers remarkably stable over a wide range of concentrations. PLoS One 2014; 9:e97657. [PMID: 24830947 PMCID: PMC4022648 DOI: 10.1371/journal.pone.0097657] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2014] [Accepted: 04/21/2014] [Indexed: 11/23/2022] Open
Abstract
It has been established that Hsp60 can accumulate in the cytosol in various pathological conditions, including cancer and chronic inflammatory diseases. Part or all of the cytosolic Hsp60 could be naïve, namely, bear the mitochondrial import signal (MIS), but neither the structure nor the in solution oligomeric organization of this cytosolic molecule has still been elucidated. Here we present a detailed study of the structure and self-organization of naïve cytosolic Hsp60 in solution. Results were obtained by different biophysical methods (light and X ray scattering, single molecule spectroscopy and hydrodynamics) that all together allowed us to assay a wide range of concentrations of Hsp60. We found that Naïve Hsp60 in aqueous solution is assembled in very stable heptamers and tetradecamers at all concentrations assayed, without any trace of monomer presence.
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Affiliation(s)
- Silvia Vilasi
- Institute of Biophysics, National Research Council, Palermo, Italy
| | - Rita Carrotta
- Institute of Biophysics, National Research Council, Palermo, Italy
| | | | - Claudia Campanella
- Department of Experimental Biomedicine and Clinical Neurosciences, University of Palermo, Palermo, Italy
- Euro-Mediterranean Institute of Science and Technology, Palermo, Italy
| | - Fabio Librizzi
- Institute of Biophysics, National Research Council, Palermo, Italy
| | | | | | - Antonella Marino Gammazza
- Department of Experimental Biomedicine and Clinical Neurosciences, University of Palermo, Palermo, Italy
- Euro-Mediterranean Institute of Science and Technology, Palermo, Italy
| | - Maria Grazia Ortore
- Department of Life and Environmental Sciences and National Interuniversity Consortium for the Physical Sciences of Matter, Marche Polytechnic University, Ancona, Italy
| | - Annalisa Vilasi
- Institute of Biosciences and Bioresources, National Research Council, Napoli, Italy
| | - Gabriella Pocsfalvi
- Institute of Biosciences and Bioresources, National Research Council, Napoli, Italy
| | - Giosalba Burgio
- Department of biological chemical and pharmaceutical sciences and technologies, University of Palermo, Palermo, Italy
| | - Davide Corona
- Department of biological chemical and pharmaceutical sciences and technologies, University of Palermo, Palermo, Italy
| | - Antonio Palumbo Piccionello
- Institute of Biophysics, National Research Council, Palermo, Italy
- Department of biological chemical and pharmaceutical sciences and technologies, University of Palermo, Palermo, Italy
| | - Giovanni Zummo
- Department of Experimental Biomedicine and Clinical Neurosciences, University of Palermo, Palermo, Italy
| | - Donatella Bulone
- Institute of Biophysics, National Research Council, Palermo, Italy
| | - Everly Conway de Macario
- Department of Microbiology and Immunology, School of Medicine, University of Maryland at Baltimore, and Institute of Marine and Environmental Technology, Columbus Center, Baltimore, Maryland, United States of America
| | - Alberto J. L. Macario
- Euro-Mediterranean Institute of Science and Technology, Palermo, Italy
- Department of Microbiology and Immunology, School of Medicine, University of Maryland at Baltimore, and Institute of Marine and Environmental Technology, Columbus Center, Baltimore, Maryland, United States of America
| | | | - Francesco Cappello
- Institute of Biophysics, National Research Council, Palermo, Italy
- Department of Experimental Biomedicine and Clinical Neurosciences, University of Palermo, Palermo, Italy
- Euro-Mediterranean Institute of Science and Technology, Palermo, Italy
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13
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Ryabova N, Marchenkov V, Kotova N, Semisotnov G. Chaperonin GroEL reassembly: an effect of protein ligands and solvent composition. Biomolecules 2014; 4:458-73. [PMID: 24970225 PMCID: PMC4101492 DOI: 10.3390/biom4020458] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2013] [Revised: 03/28/2014] [Accepted: 04/02/2014] [Indexed: 01/13/2023] Open
Abstract
Chaperonin GroEL is a complex oligomeric heat shock protein (Hsp60) assisting the correct folding and assembly of other proteins in the cell. An intriguing question is how GroEL folds itself. According to the literature, GroEL reassembly is dependent on chaperonin ligands and solvent composition. Here we demonstrate dependence of GroEL reassembly efficiency on concentrations of the essential factors (Mg2+, ADP, ATP, GroES, ammonium sulfate, NaCl and glycerol). Besides, kinetics of GroEL oligomerization in various conditions was monitored by the light scattering technique and proved to be two-exponential, which suggested accumulation of a certain oligomeric intermediate. This intermediate was resolved as a heptamer by nondenaturing blue electrophoresis of GroEL monomers during their assembly in the presence of both Mg-ATP and co-chaperonin GroES. Presumably, this intermediate heptamer plays a key role in formation of the GroEL tetradecameric particle. The role of co-chaperonin GroES (Hsp10) in GroEL assembly is also discussed.
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Affiliation(s)
- Nataliya Ryabova
- Institute of Protein Research, Russian Academy of Sciences, Institutskaya Street 4, Pushchino 142290, Russia.
| | - Victor Marchenkov
- Institute of Protein Research, Russian Academy of Sciences, Institutskaya Street 4, Pushchino 142290, Russia.
| | - Nina Kotova
- Institute of Protein Research, Russian Academy of Sciences, Institutskaya Street 4, Pushchino 142290, Russia.
| | - Gennady Semisotnov
- Institute of Protein Research, Russian Academy of Sciences, Institutskaya Street 4, Pushchino 142290, Russia.
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14
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Fan M, Rao T, Zacco E, Ahmed MT, Shukla A, Ojha A, Freeke J, Robinson CV, Benesch JL, Lund PA. The unusual mycobacterial chaperonins: evidence for in vivo oligomerization and specialization of function. Mol Microbiol 2012; 85:934-44. [PMID: 22834700 DOI: 10.1111/j.1365-2958.2012.08150.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
The pathogen Mycobacterium tuberculosis expresses two chaperonins, one (Cpn60.1) dispensable and one (Cpn60.2) essential. These proteins have been reported not to form oligomers despite the fact that oligomerization of chaperonins is regarded as essential for their function. We show here that the Cpn60.2 homologue from Mycobacterium smegmatis also fails to oligomerize under standard conditions. However, we also show that the Cpn60.2 proteins from both organisms can replace the essential groEL gene of Escherichia coli, and that they can function with E. coli GroES cochaperonin, as well as with their cognate cochaperonin proteins, strongly implying that they form oligomers in vivo. We show that the Cpn60.1 proteins, but not the Cpn60.2 proteins, can complement for loss of the M. smegmatis cpn60.1 gene. We investigated the oligomerization of the Cpn60.2 proteins using analytical ultracentrifugation and mass spectroscopy. Both form monomers under standard conditions, but they form higher order oligomers in the presence of kosmotropes and ADP or ATP. Under these conditions, their ATPase activity is significantly enhanced. We conclude that the essential mycobacterial chaperonins, while unstable compared to many other bacterial chaperonins, do act as oligomers in vivo, and that there has been specialization of function of the mycobacterial chaperonins following gene duplication.
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Affiliation(s)
- MingQi Fan
- School of Biosciences, University of Birmingham, Birmingham B15 2TT, UK
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15
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Altenhofer P, Schierhorn A, Fricke B. Agarose isoelectric focusing can improve resolution of membrane proteins in the two-dimensional electrophoresis of bacterial proteins. Electrophoresis 2006; 27:4096-111. [PMID: 16983635 DOI: 10.1002/elps.200600051] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
2-D separation of bacterial membrane proteins is still difficult despite using high-resolution IPG-IEF/SDS-PAGE. We were searching for alternative methods to avoid typical problems such as precipitation, low solubility, and aggregation of membrane proteins in the 1-D separation with IPG-IEF. Blue native electrophoresis (BNE) and agarose IEF (A-IEF) were tested for their separation capacity and their capability of replacing IPG-IEF in the first dimension. SDS-PAGE was chosen for the second dimension on account of its outstanding resolution. We could confirm that only A-IEF was a useful replacement for the IPG-IEF in the first dimension resulting in 2-D protein distributions with additional membrane protein spots not being found after IPG-IEF/SDS-PAGE. A second interesting result was that the agarose IEF mediates the possibility of separation of membrane proteins in a partially native state in the first dimension. This native A-IEF resulted in drastically changed spot patterns with an acidic shift of nearly all spots and divergent distribution of proteins compared to non-native A-IEF and IPG-IEF. We found out that native and non-native A-IEF are powerful tools to supplement IPG-IEF/SDS-PAGE.
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Affiliation(s)
- Pia Altenhofer
- Medical Faculty, Institute of Physiological Chemistry, Martin Luther University, Halle, Saale, Germany.
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Wang SSS, Chen YT, Chen PH, Liu KN. A kinetic study on the aggregation behavior of β-amyloid peptides in different initial solvent environments. Biochem Eng J 2006. [DOI: 10.1016/j.bej.2005.02.037] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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17
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Iizuka R, Yoshida T, Ishii N, Zako T, Takahashi K, Maki K, Inobe T, Kuwajima K, Yohda M. Characterization of archaeal group II chaperonin-ADP-metal fluoride complexes: implications that group II chaperonins operate as a "two-stroke engine". J Biol Chem 2005; 280:40375-83. [PMID: 16183634 DOI: 10.1074/jbc.m506785200] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Group II chaperonins, found in Archaea and in the eukaryotic cytosol, act independently of a cofactor corresponding to GroES of group I chaperonins. Instead, the helical protrusion at the tip of the apical domain forms a built-in lid of the central cavity. Although many studies on the lid's conformation have been carried out, the conformation in each step of the ATPase cycle remains obscure. To clarify this issue, we examined the effects of ADP-aluminum fluoride (AlFx) and ADP-beryllium fluoride (BeFx) complexes on alpha-chaperonin from the hyperthermophilic archaeum, Thermococcus sp. strain KS-1. Biochemical assays, electron microscopic observations, and small angle x-ray scattering measurements demonstrate that alpha-chaperonin incubated with ADP and BeFx exists in an asymmetric conformation; one ring is open, and the other is closed. The result indicates that alpha-chaperonin also shares the inherent functional asymmetry of bacterial and eukaryotic cytosolic chaperonins. Most interestingly, addition of ADP and BeFx induced alpha-chaperonin to encapsulate unfolded proteins in the closed ring but did not trigger their folding. Moreover, alpha-chaperonin incubated with ATP and AlFx or BeFx adopted a symmetric closed conformation, and its functional turnover was inhibited. These forms are supposed to be intermediates during the reaction cycle of group II chaperonins.
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Affiliation(s)
- Ryo Iizuka
- Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, 2-24-16 Naka-cho, Koganei, Tokyo 184-8588, Japan
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18
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Qamra R, Srinivas V, Mande SC. Mycobacterium tuberculosis GroEL homologues unusually exist as lower oligomers and retain the ability to suppress aggregation of substrate proteins. J Mol Biol 2004; 342:605-17. [PMID: 15327959 DOI: 10.1016/j.jmb.2004.07.066] [Citation(s) in RCA: 69] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2004] [Revised: 07/18/2004] [Accepted: 07/19/2004] [Indexed: 11/17/2022]
Abstract
Chaperonin-60s are large double ring oligomeric proteins with a central cavity where unfolded polypeptides undergo productive folding. In conjunction with their co-chaperonin, Chaperonin-60s bind non-native polypeptides and facilitate their refolding in an ATP-dependent manner. The ATPase activity of Chaperonin-60 is tightly regulated by the 10 kDa co-chaperonin. In contrast to most other bacterial species, Mycobacterium tuberculosis genome carries a duplicate set of cpn60 genes, one of which occurs on the groESL operon (cpn60.1), while the other is separately arranged on the chromosome (cpn60.2). Biophysical characterization of the mycobacterial proteins showed that these proteins exist as lower oligomers and not tetradecamers, an unexpected property much different from the other known Chaperonin-60s. Failure of the M.tuberculosis chaperonins to oligomerize can be attributed to amino acid mutations at the oligomeric interface. Rates of ATP hydrolysis of the M.tuberculosis chaperonins showed that these proteins possess a very weak ATPase activity. Both the M.tuberculosis chaperonins were partially active in refolding substrate proteins. Interestingly, their refolding activity was seen to be independent of the co-chaperonin and ATP. We hypothesize that the ATP independent chaperones might offer benefit to the pathogen by promoting its existence in the latent phase of its life cycle.
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Affiliation(s)
- Rohini Qamra
- Laboratory of Structural Biology, Centre for DNA Fingerprinting and Diagnostics, ECIL Road, Nacharam, Hyderabad 500076, India
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Kohn JE, Millett IS, Jacob J, Zagrovic B, Dillon TM, Cingel N, Dothager RS, Seifert S, Thiyagarajan P, Sosnick TR, Hasan MZ, Pande VS, Ruczinski I, Doniach S, Plaxco KW. Random-coil behavior and the dimensions of chemically unfolded proteins. Proc Natl Acad Sci U S A 2004; 101:12491-6. [PMID: 15314214 PMCID: PMC515087 DOI: 10.1073/pnas.0403643101] [Citation(s) in RCA: 538] [Impact Index Per Article: 26.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Spectroscopic studies have identified a number of proteins that appear to retain significant residual structure under even strongly denaturing conditions. Intrinsic viscosity, hydrodynamic radii, and small-angle x-ray scattering studies, in contrast, indicate that the dimensions of most chemically denatured proteins scale with polypeptide length by means of the power-law relationship expected for random-coil behavior. Here we further explore this discrepancy by expanding the length range of characterized denatured-state radii of gyration (R(G)) and by reexamining proteins that reportedly do not fit the expected dimensional scaling. We find that only 2 of 28 crosslink-free, prosthetic-group-free, chemically denatured polypeptides deviate significantly from a power-law relationship with polymer length. The R(G) of the remaining 26 polypeptides, which range from 16 to 549 residues, are well fitted (r(2) = 0.988) by a power-law relationship with a best-fit exponent, 0.598 +/- 0.028, coinciding closely with the 0.588 predicted for an excluded volume random coil. Therefore, it appears that the mean dimensions of the large majority of chemically denatured proteins are effectively indistinguishable from the mean dimensions of a random-coil ensemble.
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Affiliation(s)
- Jonathan E Kohn
- Interdepartmental Program in Biomolecular Science and Engineering, University of California-Santa Barbara, Santa Barbara, CA 93106, USA
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