TrkA undergoes a tetramer-to-dimer conversion to open TrkH which enables changes in membrane potential

Zhang, Hanzhi; Pan, Yaping; Hu, Liya; Hudson, M. Ashley; Hofstetter, Katrina S.; Xu, Zhichun; Rong, Mingqiang; Wang, Zhao; Prasad, B. V.  Venkataram; Lockless, Steve W.; Chiu, Wah; Zhou, Ming

doi:10.1038/s41467-019-14240-9

Title: TrkA undergoes a tetramer-to-dimer conversion to open TrkH which enables changes in membrane potential

Journal Article · Tue Jan 28 00:00:00 EST 2020 · Nature Communications

DOI:https://doi.org/10.1038/s41467-019-14240-9· OSTI ID:1598012

Zhang, Hanzhi ^[1]; Pan, Yaping ^[1];

^[1]; Hudson, M. Ashley ^[2]; Hofstetter, Katrina S. ^[2]; Xu, Zhichun ^[1]; Rong, Mingqiang ^[1];

^[1];

^[1]; Lockless, Steve W. ^[2]; Chiu, Wah ^[3]; Zhou, Ming ^[1]

Baylor College of Medicine, Houston, TX (United States)
Texas A & M Univ., College Station, TX (United States)
Stanford Univ., CA (United States)

TrkH is a bacterial ion channel implicated in K⁺ uptake and pH regulation. TrkH assembles with its regulatory protein, TrkA, which closes the channel when bound to ADP and opens it when bound to ATP. However, it is unknown how nucleotides control the gating of TrkH through TrkA. Here we report the structures of the TrkH-TrkA complex in the presence of ADP or ATP. TrkA forms a tetrameric ring when bound to ADP and constrains TrkH to a closed conformation. The TrkA ring splits into two TrkA dimers in the presence of ATP and releases the constraints on TrkH, resulting in an open channel conformation. Functional studies show that both the tetramer-to-dimer conversion of TrkA and the loss of constraints on TrkH are required for channel gating. In addition, deletion of TrkA in Escherichia coli depolarizes the cell, suggesting that the TrkH-TrkA complex couples changes in intracellular nucleotides to membrane potential.

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Research Organization:: Argonne National Laboratory (ANL), Argonne, IL (United States). Advanced Photon Source (APS)

Sponsoring Organization:: National Institutes of Health (NIH); Cancer Prevention and Research Institute of Texas (CPRIT); Robert Welch Foundation

Grant/Contract Number:: HL086392; DK122784; P41GM103832; GM132436; R1223; Q-1279; Q-1967; A-1742; AC02-06CH11357

OSTI ID:: 1598012

Journal Information:: Nature Communications, Vol. 11, Issue 1; ISSN 2041-1723

Publisher:: Nature Publishing GroupCopyright Statement

Country of Publication:: United States

Language:: ENGLISH

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Cited by: 14 works

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Xylo- and arabinoxylooligosaccharides from wheat bran by endoxylanases, utilisation by probiotic bacteria, and structural studies of the enzymes Mathew, Sindhu; Aronsson, Anna; Karlsson, Eva Nordberg Applied Microbiology and Biotechnology, Vol. 102, Issue 7 https://doi.org/10.1007/s00253-018-8823-x	journal	February 2018
In silico investigation by conceptual DFT and molecular docking of antitrypanosomal compounds for understanding cruzain inhibition Salah, Toufik; Belaidi, Salah; Melkemi, Nadjib Journal of Theoretical and Computational Chemistry, Vol. 15, Issue 03 https://doi.org/10.1142/s0219633616500218	journal	May 2016
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Structural and molecular basis of angiotensin-converting enzyme by computational modeling: Insights into the mechanisms of different inhibitors Fang, Li; Geng, Mingxian; Liu, Chunlei PLOS ONE, Vol. 14, Issue 4 https://doi.org/10.1371/journal.pone.0215609	journal	April 2019
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Cloning, purification and biochemical characterisation of a GH35 beta-1,3/beta-1,6-galactosidase from the mucin-degrading gut bacterium Akkermansia muciniphila Guo, Bi-Shan; Zheng, Feng; Crouch, Lucy Glycoconjugate Journal, Vol. 35, Issue 3 https://doi.org/10.1007/s10719-018-9824-9	journal	May 2018
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Structural basis for ligand recognition of the human thromboxane A2 receptor Fan, Hengxin; Chen, Shuanghong; Yuan, Xiaojing Nature Chemical Biology, Vol. 15, Issue 1 https://doi.org/10.1038/s41589-018-0170-9	journal	December 2018
Identification of a novel small-molecule Keap1–Nrf2 PPI inhibitor with cytoprotective effects on LPS-induced cardiomyopathy Jiang, Cheng-Shi; Zhuang, Chun-Lin; Zhu, Kongkai Taylor & Francis https://doi.org/10.6084/m9.figshare.6182003	text	January 2018
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FBXW7 regulates DISC1 stability via the ubiquitin-proteosome system Yalla, K.; Elliott, C.; Day, J. P. Molecular Psychiatry, Vol. 23, Issue 5 https://doi.org/10.1038/mp.2017.138	journal	July 2017
Decreased serum PON1 arylesterase activity in familial hypercholesterolemia patients with a mutated LDLR gene Idrees, Muhammad; Siddiqi, Abdul Rauf; Ajmal, Muhammad Genetics and Molecular Biology, Vol. 41, Issue 3 https://doi.org/10.1590/1678-4685-GMB-2016-0287	journal	September 2018
In silico mapping of allosteric ligand binding sites in type-1 cannabinoid receptor: CB ₁ Binding Pockets Sabatucci, Annalaura; Tortolani, Daniel; Dainese, Enrico Biotechnology and Applied Biochemistry, Vol. 65, Issue 1 https://doi.org/10.1002/bab.1589	journal	January 2018
Phytochemical composition and the cholinesterase and xanthine oxidase inhibitory properties of seed extracts from the Washingtonia filifera palm fruit Floris, Sonia; Fais, Antonella; Rosa, Antonella RSC Advances, Vol. 9, Issue 37 https://doi.org/10.1039/c9ra02928a	journal	January 2019
Inhibition of Oncogenic Kinases: An In Vitro Validated Computational Approach Identified Potential Multi-Target Anticancer Compounds Ikram, Nazia; Mirza, Muhammad Usman; Vanmeert, Michiel Biomolecules, Vol. 9, Issue 4 https://doi.org/10.3390/biom9040124	journal	March 2019
Structure of the glucagon receptor in complex with a glucagon analogue Zhang, Haonan; Qiao, Anna; Yang, Linlin Nature, Vol. 553, Issue 7686 https://doi.org/10.1038/nature25153	journal	January 2018
Structural basis of ligand binding modes at the neuropeptide Y Y1 receptor Yang, Zhenlin; Han, Shuo; Keller, Max Nature, Vol. 556, Issue 7702 https://doi.org/10.1038/s41586-018-0046-x	journal	April 2018
Structure of Gremlin-1 and analysis of its interaction with BMP-2 Kišonaitė, Miglė; Wang, Xuelu; Hyvönen, Marko Biochemical Journal, Vol. 473, Issue 11 https://doi.org/10.1042/BCJ20160254	journal	May 2016
Specific keratinase derived designer peptides potently inhibit Aβ aggregation resulting in reduced neuronal toxicity and apoptosis Rajput, Rinky; G. L., Balasubramani; Srivastava, Ankit Biochemical Journal, Vol. 476, Issue 12 https://doi.org/10.1042/bcj20190183	journal	June 2019
Investigation of specific binding of designed oligodeoxynucleotide decoys to transcription factors in HT29 cell line undergoing epithelial–mesenchymal transition (EMT) Bigdelou, Zahra; Johari, Behrooz; Kadivar, Mehdi Journal of Cellular Physiology, Vol. 234, Issue 12 https://doi.org/10.1002/jcp.28841	journal	May 2019
Design and synthesis of a novel trinuclear palladium( ii ) complex containing an oxime chelate ligand: determining the interaction mechanism with the DNA groove and BSA site I by spectroscopic and molecular dynamics simulation approaches Karami, Kazem; Lighvan, Zohreh Mehri; Barzani, Somayeh Asgari New Journal of Chemistry, Vol. 39, Issue 11 https://doi.org/10.1039/c5nj01280e	journal	January 2015
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Thienopyrimidine sulphonamide hybrids: design, synthesis, antiprotozoal activity and molecular docking studies Leeza Zaidi, Saadia; Agarwal, Subhash M.; Chavalitshewinkoon-Petmitr, Porntip RSC Advances, Vol. 6, Issue 93 https://doi.org/10.1039/c6ra15181g	journal	January 2016
Consortia of bioactives in supercritical carbon dioxide extracts of mustard and small cardamom seeds lower serum cholesterol levels in rats: new leads for hypocholesterolaemic supplements from spices Chakraborty, Soumi; Paul, Kaninika; Mallick, Priyanka Journal of Nutritional Science, Vol. 8 https://doi.org/10.1017/jns.2019.28	journal	January 2019
D224V and S128Y mutation in FSHR _ED influence thumb movement differentially: An intricate insight gained by short‐term molecular dynamics simulation Gharemirshamlu, Fatemeh Rahimi; Afsar, Maliha; Mokhdomi, Taseem A. Journal of Cellular Biochemistry, Vol. 120, Issue 5 https://doi.org/10.1002/jcb.28044	journal	November 2018
Deciphering the binding behavior of flavonoids to the cyclin dependent kinase 6/cyclin D complex Zhang, Jingxiao; Zhang, Lilei; Xu, Yangcheng PLOS ONE, Vol. 13, Issue 5 https://doi.org/10.1371/journal.pone.0196651	journal	May 2018
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Lysozyme's lectin-like characteristics facilitates its immune defense function Zhang, Ruiyan; Wu, Lisha; Eckert, Thomas Deutsches Elektronen-Synchrotron, DESY, Hamburg https://doi.org/10.3204/pubdb-2017-13512	text	January 2017
Identification of potential natural inhibitors of SARS-CoV2 main protease by molecular docking and simulation studies Gupta, Sanjay; Singh, Atul Kumar; Kushwaha, Prem Prakash Taylor & Francis https://doi.org/10.6084/m9.figshare.12403472	text	January 2020
Microencapsulation of Anthocyanins from Grape Skins by Whey Protein Isolates and Different Polymers Stănciuc, Nicoleta; Turturică, Mihaela; Oancea, Ana Maria Food and Bioprocess Technology, Vol. 10, Issue 9 https://doi.org/10.1007/s11947-017-1938-8	journal	June 2017
Defining ICR-Mo, an intrinsic colistin resistance determinant from Moraxella osloensis Wei, Wenhui; Srinivas, Swaminath; Lin, Jingxia PLOS Genetics, Vol. 14, Issue 5 https://doi.org/10.1371/journal.pgen.1007389	journal	May 2018
First structure of archaeal branched-chain amino acid aminotransferase from Thermoproteus uzoniensis specific for l-amino acids and R-amines Boyko, Konstantin M.; Stekhanova, Tatiana N.; Nikolaeva, Alena Yu. Extremophiles, Vol. 20, Issue 2 https://doi.org/10.1007/s00792-016-0816-z	journal	February 2016
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Interaction of Selected Terpenoids From Dalbergia sissoo With Catalytic Domain of Matrix Metalloproteinase-1: An In Silico Assessment of Their Anti-wrinkling Potential Yasmeen, Shagufta; Gupta, Promila Bioinformatics and Biology Insights, Vol. 13 https://doi.org/10.1177/1177932219896538	journal	January 2019
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Human substance P receptor binding mode of the antagonist drug aprepitant by NMR and crystallography. Wüthrich, Kurt; Chen, Shuanghong; Lu, Mengjie ETH Zurich https://doi.org/10.3929/ethz-b-000393140	text	January 2019
Crystal structures of multidrug efflux pump MexB bound with high-molecular-mass compounds Sakurai, Keisuke; Yamasaki, Seiji; Nakao, Kaori Scientific Reports, Vol. 9, Issue 1 https://doi.org/10.1038/s41598-019-40232-2	journal	March 2019
X-ray structure of Fasciola hepatica Sigma class glutathione transferase 1 reveals a disulfide bond to support stability in gastro-intestinal environment Line, Kirsty; Isupov, Michail N.; LaCourse, E. James Scientific Reports, Vol. 9, Issue 1 https://doi.org/10.1038/s41598-018-37531-5	journal	January 2019
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UDP-Glucose 4-Epimerase and β-1,4-Galactosyltransferase from the Oyster Magallana gigas as Valuable Biocatalysts for the Production of Galactosylated Products Song, Hui-Bo; He, Meng; Cai, Zhi-Peng International Journal of Molecular Sciences, Vol. 19, Issue 6 https://doi.org/10.3390/ijms19061600	journal	May 2018
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High throughput in silico identification and characterization of Plasmodium falciparum PRL phosphatase inhibitors Pandey, Rajan; Kumar, Rakesh; Gupta, Priya Journal of Biomolecular Structure and Dynamics, Vol. 36, Issue 13 https://doi.org/10.1080/07391102.2017.1392365	journal	November 2017
Analysis of non-peptidic compounds as potential malarial inhibitors against Plasmodial cysteine proteases via integrated virtual screening workflow Musyoka, Thommas M.; Kanzi, Aquillah M.; Lobb, Kevin A. Journal of Biomolecular Structure and Dynamics, Vol. 34, Issue 10 https://doi.org/10.1080/07391102.2015.1108231	journal	January 2016
Comparative structural analysis of the caspase family with other clan CD cysteine peptidases McLuskey, Karen; Mottram, Jeremy C. Biochemical Journal, Vol. 466, Issue 2 https://doi.org/10.1042/BJ20141324	journal	February 2015
Computational insight to putative anti-acetylcholinesterase activity of Commiphora myrrha (Nees), Engler, Burseraceae: a lessen of archaeopharmacology from Mesopotamian Medicine I Hussein, Baydaa Abed; Karimi, Isaac; Yousofvand, Namdar In Silico Pharmacology, Vol. 7, Issue 1 https://doi.org/10.1007/s40203-019-0052-1	journal	May 2019
The intrinsic structure of poly(A) RNA determines the specificity of Pan2 and Caf1 deadenylases Tang, Terence T. L.; Stowell, James A. W.; Hill, Chris H. Nature Structural & Molecular Biology, Vol. 26, Issue 6 https://doi.org/10.1038/s41594-019-0227-9	journal	May 2019

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