Aquaporins: Structure, Systematics, and Regulatory Features A
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Protein Family Review
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by PubMed Central Protein family review The aquaporins comment Elisabeth Kruse, Norbert Uehlein and Ralf Kaldenhoff Address: Institute of Botany, Department of Applied Plant Sciences, Darmstadt University of Technology, Schnittspahnstraße 10, D-64287 Darmstadt, Germany. Correspondence: Ralf Kaldenhoff. Email: [email protected] reviews Published: 28 February 2006 Genome Biology 2006, 7:206 (doi:10.1186/gb-2006-7-2-206) The electronic version of this article is the complete one and can be found online at http://genomebiology.com/2006/7/2/206 © 2006 BioMed Central Ltd reports Summary Water is the major component of all living cells, and efficient regulation of water homeostasis is essential for many biological processes. The mechanism by which water passes through biological membranes was a matter of debate until the discovery of the aquaporin water channels. Aquaporins are intrinsic membrane proteins characterized by six transmembrane helices that deposited research selectively allow water or other small uncharged molecules to pass along the osmotic gradient. In addition, recent observations show that some aquaporins also facilitate the transport of volatile substances, such as carbon dioxide (CO2) and ammonia (NH3), across membranes. Aquaporins usually form tetramers, with each monomer defining a single pore. Aquaporin-related proteins are found in all organisms, from archaea to mammals. In both uni- and multicellular organisms, numerous isoforms have been identified that are differentially expressed and modified by post- translational processes, thus allowing fine-tuned tissue-specific osmoregulation. In mammals, aquaporins are involved in multiple physiological processes, including kidney and salivary gland refereed research function. -
Single Amino Acid Substitutions in the Selectivity Filter
Ampah-Korsah et al. BMC Plant Biology (2017) 17:61 DOI 10.1186/s12870-017-1009-3 RESEARCHARTICLE Open Access Single amino acid substitutions in the selectivity filter render NbXIP1;1α aquaporin water permeable Henry Ampah-Korsah, Yonathan Sonntag, Angelica Engfors, Andreas Kirscht, Per Kjellbom and Urban Johanson* Abstract Background: Aquaporins (AQPs) are integral membrane proteins that facilitate transport of water and/or other small neutral solutes across membranes in all forms of life. The X Intrinsic Proteins (XIPs) are the most recently recognized and the least characterized aquaporin subfamily in higher plants. XIP1s have been shown to be impermeable to water but permeable to boric acid, glycerol, hydrogen peroxide and urea. However, uncertainty regarding the determinants for selectivity and lack of an activity that is easy to quantify have hindered functional investigations. In an effort to resolve these issues, we set out to introduce water permeability in Nicotiana benthamiana XIP1;1α (NbXIP1;1α), by exchanging amino acid residues of predicted alternative aromatic/arginine (ar/R) selectivity filters of NbXIP1;1α for residues constituting the water permeable ar/R selectivity filter of AtTIP2;1. Results: Here, we present functional results regarding the amino acid substitutions in the putative filters as well as deletions in loops C and D of NbXIP1;1α. In addition, homology models were created based on the high resolution X-ray structure of AtTIP2;1 to rationalize the functional properties of wild-type and mutant NbXIP1;1α. Our results favour Thr 246 rather than Val 242 as the residue at the helix 5 position in the ar/R filter of NbXIP1;1α and indicate that the pore is not occluded by the loops when heterologously expressed in Pichia pastoris. -
Combining Genome-Wide and Transcriptome-Wide Analyses Reveal
Li et al. BMC Genomics (2019) 20:538 https://doi.org/10.1186/s12864-019-5928-2 RESEARCHARTICLE Open Access Combining genome-wide and transcriptome-wide analyses reveal the evolutionary conservation and functional diversity of aquaporins in cotton Weixi Li, Dayong Zhang, Guozhong Zhu, Xinyue Mi and Wangzhen Guo* Abstract Background: Aquaporins (AQPs) are integral membrane proteins from a larger family of major intrinsic proteins (MIPs) and function in a huge variety of processes such as water transport, plant growth and stress response. The availability of the whole-genome data of different cotton species allows us to study systematic evolution and function of cotton AQPs on a genome-wide level. Results: Here, a total of 53, 58, 113 and 111 AQP genes were identified in G. arboreum, G. raimondii, G. hirsutum and G. barbadense, respectively. A comprehensive analysis of cotton AQPs, involved in exon/intron structure, functional domains, phylogenetic relationships and gene duplications, divided these AQPs into five subfamilies (PIP, NIP, SIP, TIP and XIP). Comparative genome analysis among 30 species from algae to angiosperm as well as common tandem duplication events in 24 well-studied plants further revealed the evolutionary conservation of AQP family in the organism kingdom. Combining transcriptome analysis and Quantitative Real-time PCR (qRT-PCR) verification, most AQPs exhibited tissue-specific expression patterns both in G. raimondii and G. hirsutum. Meanwhile, a bias of time to peak expression of several AQPs was also detected after treating G. davidsonii and G. hirsutum with 200 mM NaCl. It is interesting that both PIP1;4 h/i/j and PIP2;2a/e showed the highly conserved tandem structure, but differentially contributed to tissue development and stress response in different cotton species. -
Snapshot: Mammalian TRP Channels David E
SnapShot: Mammalian TRP Channels David E. Clapham HHMI, Children’s Hospital, Department of Neurobiology, Harvard Medical School, Boston, MA 02115, USA TRP Activators Inhibitors Putative Interacting Proteins Proposed Functions Activation potentiated by PLC pathways Gd, La TRPC4, TRPC5, calmodulin, TRPC3, Homodimer is a purported stretch-sensitive ion channel; form C1 TRPP1, IP3Rs, caveolin-1, PMCA heteromeric ion channels with TRPC4 or TRPC5 in neurons -/- Pheromone receptor mechanism? Calmodulin, IP3R3, Enkurin, TRPC6 TRPC2 mice respond abnormally to urine-based olfactory C2 cues; pheromone sensing 2+ Diacylglycerol, [Ca ]I, activation potentiated BTP2, flufenamate, Gd, La TRPC1, calmodulin, PLCβ, PLCγ, IP3R, Potential role in vasoregulation and airway regulation C3 by PLC pathways RyR, SERCA, caveolin-1, αSNAP, NCX1 La (100 µM), calmidazolium, activation [Ca2+] , 2-APB, niflumic acid, TRPC1, TRPC5, calmodulin, PLCβ, TRPC4-/- mice have abnormalities in endothelial-based vessel C4 i potentiated by PLC pathways DIDS, La (mM) NHERF1, IP3R permeability La (100 µM), activation potentiated by PLC 2-APB, flufenamate, La (mM) TRPC1, TRPC4, calmodulin, PLCβ, No phenotype yet reported in TRPC5-/- mice; potentially C5 pathways, nitric oxide NHERF1/2, ZO-1, IP3R regulates growth cones and neurite extension 2+ Diacylglycerol, [Ca ]I, 20-HETE, activation 2-APB, amiloride, Cd, La, Gd Calmodulin, TRPC3, TRPC7, FKBP12 Missense mutation in human focal segmental glomerulo- C6 potentiated by PLC pathways sclerosis (FSGS); abnormal vasoregulation in TRPC6-/- -
Study of Selectivity and Permeation in Voltage-Gated Ion Channels
Study of Selectivity and Permeation in Voltage-Gated Ion Channels By Janhavi Giri, Ph.D. Visiting Research Faculty Division of Molecular Biophysics and Physiology Rush University Medical Center Chicago, IL, USA Email: [email protected] i TABLE OF CONTENTS Page TABLE OF CONTENTS ..................................................................................................... i LIST OF TABLES ............................................................................................................. iii LIST OF FIGURES ........................................................................................................... iv SUMMARY ............................................................................................................... xvi CHAPTER 1. INTRODUCTION ....................................................................................... 1 1.1. Background ................................................................................................... 1 1.2. Overview .................................................................................................... 10 CHAPTER 2. SELF-ORGANIZED MODELS OF SELECTIVITY IN CALCIUM CHANNELS ........................................................................................... 13 2.1. Introduction ................................................................................................ 13 2.2. Methods ...................................................................................................... 19 2.2.1. Model of Channel and Electrolyte ........................................................19 -
An Aquaporin-4/Transient Receptor Potential Vanilloid 4 (AQP4/TRPV4) Complex Is Essential for Cell-Volume Control in Astrocytes
An aquaporin-4/transient receptor potential vanilloid 4 (AQP4/TRPV4) complex is essential for cell-volume control in astrocytes Valentina Benfenatia,1, Marco Caprinib,1, Melania Doviziob, Maria N. Mylonakouc, Stefano Ferronib, Ole P. Ottersenc, and Mahmood Amiry-Moghaddamc,2 aInstitute for Nanostructured Materials, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; bDepartment of Human and General Physiology, University of Bologna, 40127 Bologna, Italy; and cCenter for Molecular Biology and Neuroscience and Department of Anatomy, University of Oslo, 0317 Oslo, Norway Edited* by Peter Agre, Johns Hopkins Malaria Research Institute, Baltimore, MD, and approved December 27, 2010 (received for review September 1, 2010) Regulatory volume decrease (RVD) is a key mechanism for volume channels (VRAC). Osmolyte efflux through VRAC is thought to control that serves to prevent detrimental swelling in response to provide the driving force for water exit (6, 7). The factors that hypo-osmotic stress. The molecular basis of RVD is not understood. initiate RVD have received comparatively little attention. Here Here we show that a complex containing aquaporin-4 (AQP4) and we test our hypothesis that activation of astroglial RVD depends transient receptor potential vanilloid 4 (TRPV4) is essential for RVD on a molecular interaction between AQP4 and TRPV4. fi in astrocytes. Astrocytes from AQP4-KO mice and astrocytes treated Our hypothesis rests on our recent nding that TRPV4 is with TRPV4 siRNA fail to respond to hypotonic stress by increased strongly expressed in astrocytic endfeet membranes abutting the – intracellular Ca2+ and RVD. Coimmunoprecipitation and immunohis- pia (including the extension of the pia that lines the Virchow tochemistry analyses show that AQP4 and TRPV4 interact and coloc- Robin spaces) and in endfeet underlying ependyma of the ven- alize. -
Genome-Wide Identification, Characterization, and Expression
www.nature.com/scientificreports OPEN Genome-wide identification, characterization, and expression profile of aquaporin gene family in Received: 23 August 2016 Accepted: 13 March 2017 flax (Linum usitatissimum) Published: 27 April 2017 S. M. Shivaraj1,*, Rupesh K. Deshmukh2,*, Rhitu Rai1, Richard Bélanger2, Pawan K. Agrawal3 & Prasanta K. Dash1 Membrane intrinsic proteins (MIPs) form transmembrane channels and facilitate transport of myriad substrates across the cell membrane in many organisms. Majority of plant MIPs have water transporting ability and are commonly referred as aquaporins (AQPs). In the present study, we identified aquaporin coding genes in flax by genome-wide analysis, their structure, function and expression pattern by pan- genome exploration. Cross-genera phylogenetic analysis with known aquaporins from rice, arabidopsis, and poplar showed five subgroups of flax aquaporins representing 16 plasma membrane intrinsic proteins (PIPs), 17 tonoplast intrinsic proteins (TIPs), 13 NOD26-like intrinsic proteins (NIPs), 2 small basic intrinsic proteins (SIPs), and 3 uncharacterized intrinsic proteins (XIPs). Amongst aquaporins, PIPs contained hydrophilic aromatic arginine (ar/R) selective filter but TIP, NIP, SIP and XIP subfamilies mostly contained hydrophobic ar/R selective filter. Analysis of RNA-seq and microarray data revealed high expression of PIPs in multiple tissues, low expression of NIPs, and seed specific expression of TIP3 in flax. Exploration of aquaporin homologs in three closely relatedLinum species bienne, grandiflorum and leonii revealed presence of 49, 39 and 19 AQPs, respectively. The genome-wide identification of aquaporins, first in flax, provides insight to elucidate their physiological and developmental roles in flax. Water absorption from soil through roots and its translocation to different parts is of paramount importance for innate physiological processes in plants. -
Gadolinium Chloride Restores the Function of the Gap Junctional Intercellular Communication Between Hepatocytes in a Liver Injury
Article Gadolinium Chloride Restores the Function of the Gap Junctional Intercellular Communication between Hepatocytes in a Liver Injury Le Yang, Chengbin Dong, Lei Tian, Xiaofang Ji, Lin Yang and Liying Li * Department of Cell Biology, Municipal Laboratory for Liver Protection and Regulation of Regeneration, Capital Medical University, Beijing 100069, China * Correspondence: [email protected]; Tel.: +0086-10-83950468; Fax: +0086-10-83950468; Received: 3 July 2019; Accepted: 30 July 2019; Published: 31 July 2019 Abstract: Background: Gadolinium chloride (GdCl3) has been reported to attenuate liver injury caused by a variety of toxicants. Gap junctional intercellular communication (GJIC) is thought to be essential in controlling liver homeostasis and pathology. Here we evaluate the effects of GdCl3 on functional GJIC and connexin expression in mouse models and primary hepatocytes. Methods: Mice were administered GdCl3 intraperitoneally the day before a carbon tetrachloride (CCl4) injection or bile duct ligation (BDL) operation. Primary hepatocytes were treated with CCl4 or lipopolysaccharides (LPS), with or without GdCl3. A scrape loading/dye transfer assay was performed to assess the GJIC function. The expression of connexins was examined by real-time reverse transcription polymerase chain reaction (RT-PCR), western blot and immunofluorescent staining. Results: CCl4 treatment or the BDL operation led to the dysfunction of GJIC and a down-regulation of Cx32 and Cx26 in injured liver. GdCl3 administration restored GJIC function between hepatocytes by facilitating the transfer of fluorescent dye from one cell into adjacent cells via GJIC, and markedly prevented the decrease of Cx32 and Cx26 in injured liver. In primary hepatocytes, CCl4 or LPS treatment induced an obvious decline of Cx32 and Cx26, whereas GdCl3 pretreatment prevented the down-regulation of connexins. -
Cooperativity in Plant Plasma Membrane Intrinsic Proteins
www.nature.com/scientificreports OPEN Cooperativity in Plant Plasma Membrane Intrinsic Proteins (PIPs): Mechanism of Increased Water Received: 19 January 2018 Accepted: 10 July 2018 Transport in Maize PIP1 Channels in Published: xx xx xxxx Hetero-tetramers Manu Vajpai , Mishtu Mukherjee & Ramasubbu Sankararamakrishnan Plant aquaporins (AQPs) play vital roles in several physiological processes. Plasma membrane intrinsic proteins (PIPs) belong to the subfamily of plant AQPs. They are further subdivided into two closely related subgroups PIP1s and PIP2s. While PIP2 members are efcient water channels, PIP1s from some plant species have been shown to be functionally inactive. Aquaporins form tetramers under physiological conditions. PIP2s can enhance the water transport of PIP1s when they form hetero- tetramers. However, the role of monomer-monomer interface and the signifcance of specifc residues in enhancing the water permeation of PIP1s have not been investigated at atomic level. We have performed all-atom molecular dynamics (MD) simulations of homo-tetramers and four diferent hetero- tetramers containing ZmPIP1;2 and ZmPIP2;5 from Zea mays. ZmPIP1;2 in a tetramer assembly will have two interfaces, one formed by transmembrane segments TM4 and TM5 and the other formed by TM1 and TM2. We have analyzed channel radius profles, water transport and potential of mean force profles of ZmPIP1;2 monomers. Results of MD simulations clearly revealed the infuence of TM4-TM5 interface in modulating the water transport of ZmPIP1;2. MD simulations indicate the importance of I93 residue from the TM2 segment of ZmPIP2;5 for the increased water transport in ZmPIP1;2. Plant aquaporins constitute an important component in the superfamily of Major Intrinsic Proteins (MIPs)1,2. -
Characterization of Membrane Proteins: from a Gated Plant Aquaporin to Animal Ion Channel Receptors
Characterization of Membrane Proteins: From a gated plant aquaporin to animal ion channel receptors Survery, Sabeen 2015 Link to publication Citation for published version (APA): Survery, S. (2015). Characterization of Membrane Proteins: From a gated plant aquaporin to animal ion channel receptors. Department of Biochemistry and Structural Biology, Lund University. Total number of authors: 1 General rights Unless other specific re-use rights are stated the following general rights apply: Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights. • Users may download and print one copy of any publication from the public portal for the purpose of private study or research. • You may not further distribute the material or use it for any profit-making activity or commercial gain • You may freely distribute the URL identifying the publication in the public portal Read more about Creative commons licenses: https://creativecommons.org/licenses/ Take down policy If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim. LUND UNIVERSITY PO Box 117 221 00 Lund +46 46-222 00 00 Printed by Media-Tryck, Lund University 2015 SURVERY SABEEN Characterization of Membrane Proteins - From a gated plant aquaporin to animal ion channel -
Labned.Com Bovine
Antibodies Predicted to Bind Homologous Bovine Targets This is a catalog of all antibodies predicted to react with bovine proteins in addition to their validated reactivities. This catalog was assembled by identifying proteins targeted by LabNed antibodies that share 99% sequence homology withtheir bovine counterparts. Table of Contents High Affinity Antibodies .................................................................................... 1 High Sensitivity ELISA Kits .................................................................................... 31 High Affinity Antibodies LabNed supplies only the highest quality antibodies. Our high-affinity polyclonal and monoclonal antibodies are thoroughly validated by Western Blotting, Immunohistochemistry and ELISA. This is our comprehensive catalog of our antibody products predicted to react with bovine proteins, sorted in alphabetical order by target gene name. Applications Gene Name Product Name Reactivity WB ABAT Anti-ABA Human, Mouse, Rat WB ABCA1 Anti-ABCA1 Human, Mouse, Rat WB ABCA1 Anti-ABCA1 Human, Mouse, Rat IHC-P, WB ABCB11 Anti-ABCB11 Human, Mouse, Rat IHC-P, WB ABCC1 Anti-MRP1 Human, Mouse, Rat WB ABCC4 Anti-MRP4 Human, Mouse, Rat IHC-P, WB ABCD3 Anti-PMP70 Human, Mouse, Rat WB ABCE1 Anti-ABCE1 Human, Mouse, Rat WB ABCG1 Anti-ABCG1 Human, Mouse, Rat WB ABCG2 Anti-ABCG2 Human, Mouse, Rat WB ABCG4 Anti-ABCG4 Human, Mouse, Rat WB ABCG5 Anti-ABCG5 Human IHC-P, ICC, WB ABI1 Anti-ABI1 Human, Mouse, Rat WB ABI2 Anti-ABI2 Human, Mouse, Rat WB ACO2 Anti-Aconitase 2 Human, Mouse, Rat -
Transyt, the Transport Systems Tracker
bioRxiv preprint doi: https://doi.org/10.1101/2021.04.29.441738; this version posted April 30, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-ND 4.0 International license. TranSyT, the Transport Systems Tracker Davide Lagoa1,2, José P. Faria2, Filipe Liu2, Emanuel Cunha1, Christopher S. Henry2 and Oscar Dias1,* 1 Centre of Biological Engineering, University of Minho, Braga, 4704-553, Portugal 2 Computing, Environment, and Life Sciences Division, Argonne National Laboratory, Lemont, IL 60439, USA * To whom correspondence should be addressed. Tel: +351 253 604422; Fax: ; Email: [email protected] ABSTRACT The importance and rate of development of GSM models have been growing for the last years, increasing the demand for software solutions that automatise several steps of this process. However, since TRIAGE’s release, software development for automatic integration of transport reactions into models has stalled. Here we present the Transport Systems Tracker (TranSyT), the next iteration of TRIAGE. Unlike its predecessor, TranSyT does not rely on manual curation to expand its internal database, derived from highly-curated records retrieved from TCDB, and complemented with information from other data sources. TranSyT compiles information regarding, TC families, transport proteins, and derives reactions into its internal database, making it available for rapid annotation of complete genomes. All transport reactions have GPR associations and can be exported with identifiers from four different metabolite databases. TranSyT is currently available as a plugin for merlin v4.0 and an app for KBase.