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Gössweiner-Mohr N, Siligan C, Pluhackova K, Umlandt L, Koefler S, Trajkovska N, Horner A. The Hidden Intricacies of Aquaporins: Remarkable Details in a Common Structural Scaffold. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2022; 18:e2202056. [PMID: 35802902 DOI: 10.1002/smll.202202056] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2022] [Revised: 06/09/2022] [Indexed: 06/15/2023]
Abstract
Evolution turned aquaporins (AQPs) into the most efficient facilitators of passive water flow through cell membranes at no expense of solute discrimination. In spite of a plethora of solved AQP structures, many structural details remain hidden. Here, by combining extensive sequence- and structural-based analysis of a unique set of 20 non-redundant high-resolution structures and molecular dynamics simulations of four representatives, key aspects of AQP stability, gating, selectivity, pore geometry, and oligomerization, with a potential impact on channel functionality, are identified. The general view of AQPs possessing a continuous open water pore is challenged and it is depicted that AQPs' selectivity is not exclusively shaped by pore-lining residues but also by the relative arrangement of transmembrane helices. Moreover, this analysis reveals that hydrophobic interactions constitute the main determinant of protein thermal stability. Finally, a numbering scheme of the conserved AQP scaffold is established, facilitating direct comparison of, for example, disease-causing mutations and prediction of potential structural consequences. Additionally, the results pave the way for the design of optimized AQP water channels to be utilized in biotechnological applications.
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Affiliation(s)
| | - Christine Siligan
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, Linz, 4020, Austria
| | - Kristyna Pluhackova
- Stuttgart Center for Simulation Science, University of Stuttgart, Cluster of Excellence EXC 2075, Universitätsstr. 32, 70569, Stuttgart, Germany
| | - Linnea Umlandt
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, Linz, 4020, Austria
| | - Sabina Koefler
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, Linz, 4020, Austria
| | - Natasha Trajkovska
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, Linz, 4020, Austria
| | - Andreas Horner
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, Linz, 4020, Austria
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Sengur-Tasdemir R, Pekgenc E, Urper-Bayram GM, Ergon-Can T, Tutuncu HE, Zeytuncu B, Gul-Karaguler N, Ates-Genceli E, Koyuncu I. Determination of the effect of proteoliposome concentration on Aquaporin Z incorporated nanofiltration membranes. ENVIRONMENTAL TECHNOLOGY 2020; 41:2229-2239. [PMID: 30574839 DOI: 10.1080/09593330.2018.1561756] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2018] [Accepted: 12/13/2018] [Indexed: 06/09/2023]
Abstract
We report on the fabrication of AqpZ immobilized flat sheet membranes. The effects of interfacial polymerization conditions as well as proteoliposome concentration were evaluated. Commercial AqpZ were used as positive control for cloned AqpZ. Specific permeate flux of membranes at higher proteoliposome concentrations increased up to 25 times higher than thin film composite membranes; however; MgSO4 rejection is lowered almost to 1.5%. FTIR and SEM confirm immobilization of proteoliposomes. Thermal analysis showed that increasing proteoliposome concentration has no positive effect on the incorporation of proteoliposomes into polyamide structures. On the contrary, at lower proteoliposome concentrations, incorporation of proteoliposomes was found better. When combined membrane performances were compared in terms of specific permeate flux; MgSO4 and humic rejection and flux recovery after humic acid filtration, the performance of cloned AqpZ incorporated membranes (having 0.1 mg/mL proteoliposome concentration and polyamide formed with 2 min piperazine reaction time) improved 1.7 times regarding TFC membranes. According to the results, increasing proteoliposome concentration did not improve nanofiltration membrane performance. On the contrary, lower proteoliposome concentrations were found to be more effective in increasing membrane performance.
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Affiliation(s)
- Reyhan Sengur-Tasdemir
- Nanoscience and Nanoengineering Department, Istanbul Technical University, Istanbul, Turkey
- National Research Center on Membrane Technologies, Istanbul Technical University, Istanbul, Turkey
| | - Enise Pekgenc
- National Research Center on Membrane Technologies, Istanbul Technical University, Istanbul, Turkey
- Environmental Engineering Department, Istanbul Technical University, Istanbul, Turkey
| | - Gulsum Melike Urper-Bayram
- National Research Center on Membrane Technologies, Istanbul Technical University, Istanbul, Turkey
- Environmental Engineering Department, Istanbul Technical University, Istanbul, Turkey
| | - Tulay Ergon-Can
- National Research Center on Membrane Technologies, Istanbul Technical University, Istanbul, Turkey
| | - Havva Esra Tutuncu
- Molecular Biology and Genetics Department, Istanbul Technical University, Istanbul, Turkey
| | - Bihter Zeytuncu
- National Research Center on Membrane Technologies, Istanbul Technical University, Istanbul, Turkey
| | - Nevin Gul-Karaguler
- Molecular Biology and Genetics Department, Istanbul Technical University, Istanbul, Turkey
| | - Esra Ates-Genceli
- National Research Center on Membrane Technologies, Istanbul Technical University, Istanbul, Turkey
- Environmental Engineering Department, Istanbul Technical University, Istanbul, Turkey
| | - Ismail Koyuncu
- Nanoscience and Nanoengineering Department, Istanbul Technical University, Istanbul, Turkey
- National Research Center on Membrane Technologies, Istanbul Technical University, Istanbul, Turkey
- Environmental Engineering Department, Istanbul Technical University, Istanbul, Turkey
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Abstract
Water, essential for the biology of living organisms, is also important for agriculture, for the organization of social life and for culture. In this review we discuss the interrelationship between water availability and human population size. The total population of the globe, 3–5 million people between the years 25,000 and 5000 Before Common Era (BCE), increased about 50-fold in coincidence with the development of agriculture. Later on, after the year 200 Common Era (CE), the number of people did not change appreciably and increased slowly in the period 1000 to 1500 CE. We show that the main cause of this observed slow-down in population growth was the increase in population density, which caused the appearance and spreading of infectious diseases, often due to the use of contaminated water. Population started to increase again when people learned how to use appropriate sanitation and hygienic rules. The management of water resources, including transport of water to the areas where it is needed, separation and depuration of wastewater and production of freshwater by desalination, have become increasingly important. The population level is today very high and will continue to grow, thus causing a further increase in the density of people and an increased risk of contagious diseases. Therefore, more water for sanitation will be needed all over the world.
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Chowdhury R, Ren T, Shankla M, Decker K, Grisewood M, Prabhakar J, Baker C, Golbeck JH, Aksimentiev A, Kumar M, Maranas CD. PoreDesigner for tuning solute selectivity in a robust and highly permeable outer membrane pore. Nat Commun 2018; 9:3661. [PMID: 30202038 PMCID: PMC6131167 DOI: 10.1038/s41467-018-06097-1] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2018] [Accepted: 07/17/2018] [Indexed: 11/30/2022] Open
Abstract
Monodispersed angstrom-size pores embedded in a suitable matrix are promising for highly selective membrane-based separations. They can provide substantial energy savings in water treatment and small molecule bioseparations. Such pores present as membrane proteins (chiefly aquaporin-based) are commonplace in biological membranes but difficult to implement in synthetic industrial membranes and have modest selectivity without tunable selectivity. Here we present PoreDesigner, a design workflow to redesign the robust beta-barrel Outer Membrane Protein F as a scaffold to access three specific pore designs that exclude solutes larger than sucrose (>360 Da), glucose (>180 Da), and salt (>58 Da) respectively. PoreDesigner also enables us to design any specified pore size (spanning 3-10 Å), engineer its pore profile, and chemistry. These redesigned pores may be ideal for conducting sub-nm aqueous separations with permeabilities exceeding those of classical biological water channels, aquaporins, by more than an order of magnitude at over 10 billion water molecules per channel per second.
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Affiliation(s)
- Ratul Chowdhury
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Tingwei Ren
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Manish Shankla
- Department of Physics, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Karl Decker
- Department of Physics, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Matthew Grisewood
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Jeevan Prabhakar
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Carol Baker
- Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, 16802, USA
| | - John H Golbeck
- Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, 16802, USA
- Department of Chemistry, The Pennsylvania State University, University Park, PA, 16802, USA
| | - Aleksei Aksimentiev
- Department of Physics, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Manish Kumar
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, 16802, USA.
| | - Costas D Maranas
- Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, 16802, USA.
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Hannesschläger C, Barta T, Siligan C, Horner A. Quantification of Water Flux in Vesicular Systems. Sci Rep 2018; 8:8516. [PMID: 29867158 PMCID: PMC5986868 DOI: 10.1038/s41598-018-26946-9] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2018] [Accepted: 05/22/2018] [Indexed: 01/29/2023] Open
Abstract
Water transport across lipid membranes is fundamental to all forms of life and plays a major role in health and disease. However, not only typical water facilitators like aquaporins facilitate water flux, but also transporters, ion channels or receptors represent potent water pathways. The efforts directed towards a mechanistic understanding of water conductivity determinants in transmembrane proteins, the development of water flow inhibitors, and the creation of biomimetic membranes with incorporated membrane proteins or artificial water channels depend on reliable and accurate ways of quantifying water permeabilities Pf. A conventional method is to subject vesicles to an osmotic gradient in a stopped-flow device: Fast recordings of scattered light intensity are converted into the time course of vesicle volume change. Even though an analytical solution accurately acquiring Pf from scattered light intensities exists, approximations potentially misjudging Pf by orders of magnitude are used. By means of computational and experimental data we point out that erroneous results such as that the single channel water permeability pf depends on the osmotic gradient are direct results of such approximations. Finally, we propose an empirical solution of which calculated permeability values closely match those calculated with the analytical solution in the relevant range of parameters.
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Affiliation(s)
- Christof Hannesschläger
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, 4020, Linz, Austria
| | - Thomas Barta
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, 4020, Linz, Austria
| | - Christine Siligan
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, 4020, Linz, Austria
| | - Andreas Horner
- Institute of Biophysics, Johannes Kepler University Linz, Gruberstr. 40, 4020, Linz, Austria.
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Structure and dynamics of a free aquaporin (AQP1) by a coarse-grained Monte Carlo simulation. Struct Chem 2016. [DOI: 10.1007/s11224-016-0836-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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Hashi K, Deguchi K, Yamazaki T, Ohki S, Matsumoto S, Nishijima G, Goto A, Yamada K, Noguchi T, Sakai S, Takahashi M, Yanagisawa Y, Iguchi S, Maeda H, Tanaka R, Nemoto T, Suematsu H, To J, Torres J, Pervushin K, Shimizu T. Efficiency of High Magnetic Fields in Solid-state NMR. CHEM LETT 2016. [DOI: 10.1246/cl.151063] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
| | | | | | | | | | | | | | | | | | | | | | | | - Seiya Iguchi
- Center for Life Science Technologies, RIKEN
- Faculty of Science and Technology, Sophia University
| | | | | | | | | | - Janet To
- School of Biological Sciences, Nanyang Technological University
| | - Jaume Torres
- School of Biological Sciences, Nanyang Technological University
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Duong-Thi MD, Bergström M, Edwards K, Eriksson J, Ohlson S, To Yiu Ying J, Torres J, Agmo Hernández V. Lipodisks integrated with weak affinity chromatography enable fragment screening of integral membrane proteins. Analyst 2016; 141:981-8. [DOI: 10.1039/c5an02105g] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Membrane proteins constitute the largest class of drug targets but they present many challenges in drug discovery.
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Affiliation(s)
- Minh-Dao Duong-Thi
- Linnaeus University
- Department of Chemistry and Biomedical Sciences
- SE-39182 Kalmar
- Sweden
| | - Maria Bergström
- Linnaeus University
- Department of Chemistry and Biomedical Sciences
- SE-39182 Kalmar
- Sweden
| | - Katarina Edwards
- Uppsala University
- Department of Chemistry-BMC
- SE-75123 Uppsala
- Sweden
| | - Jonny Eriksson
- Uppsala University
- Department of Chemistry-BMC
- SE-75123 Uppsala
- Sweden
| | - Sten Ohlson
- Nanyang Technological University
- School of Biological Sciences
- Singapore 637551
- Republic of Singapore
| | - Janet To Yiu Ying
- Nanyang Technological University
- School of Biological Sciences
- Singapore 637551
- Republic of Singapore
| | - Jaume Torres
- Nanyang Technological University
- School of Biological Sciences
- Singapore 637551
- Republic of Singapore
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