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Li L, Chen SR, Zhou MH, Wang L, Li DP, Chen H, Lee G, Jayaraman V, Pan HL. α2δ-1 switches the phenotype of synaptic AMPA receptors by physically disrupting heteromeric subunit assembly. Cell Rep 2021; 36:109396. [PMID: 34289359 PMCID: PMC8353586 DOI: 10.1016/j.celrep.2021.109396] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2020] [Revised: 04/19/2021] [Accepted: 06/22/2021] [Indexed: 11/22/2022] Open
Abstract
Many neurological disorders show an increased prevalence of GluA2-lacking, Ca2+-permeable AMPA receptors (CP-AMPARs), which dramatically alters synaptic function. However, the molecular mechanism underlying this distinct synaptic plasticity remains enigmatic. Here, we show that nerve injury potentiates postsynaptic, but not presynaptic, CP-AMPARs in the spinal dorsal horn via α2δ-1. Overexpressing α2δ-1, previously regarded as a Ca2+ channel subunit, augments CP-AMPAR levels at the cell surface and synapse. Mechanistically, α2δ-1 physically interacts with both GluA1 and GluA2 via its C terminus, inhibits the GluA1/GluA2 heteromeric assembly, and increases GluA2 retention in the endoplasmic reticulum. Consequently, α2δ-1 diminishes the availability and synaptic expression of GluA1/GluA2 heterotetramers in the spinal cord in neuropathic pain. Inhibiting α2δ-1 with gabapentin or disrupting the α2δ-1-AMPAR complex fully restores the intracellular assembly and synaptic dominance of heteromeric GluA1/GluA2 receptors. Thus, α2δ-1 is a pivotal AMPAR-interacting protein that controls the subunit composition and Ca2+ permeability of postsynaptic AMPARs.
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Paudyal N, Bhatia NK, Jayaraman V. Single molecule FRET methodology for investigating glutamate receptors. Methods Enzymol 2021; 652:193-212. [PMID: 34059282 DOI: 10.1016/bs.mie.2021.02.005] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Single molecule Förster Resonance Energy Transfer (smFRET) allows us to measure variation in distances between donor and acceptor fluorophores attached to a protein, providing the conformational landscape of the protein with respect to this specific distance. smFRET can be performed on freely diffusing molecules or on tethered molecules. Here, we describe the tethered method used to study ionotropic glutamate receptors, which allows us to track the changes in FRET as a function of time, thus providing information on the conformations sampled and kinetics of conformational changes in the millisecond to second time scale. Strategies for attaching fluorophores to the proteins, methods for acquiring and analyzing the smFRET trajectories, and limitations are discussed.
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Carrillo E, Kaur Bhatia N, Akimzhanov AM, Jayaraman V. Inhibition of AMPA Receptors by Zn2+. Biophys J 2021. [DOI: 10.1016/j.bpj.2020.11.579] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
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Carrillo E, Shaikh SA, Berka V, Durham RJ, Litwin DB, Lee G, MacLean DM, Nowak LM, Jayaraman V. Mechanism of modulation of AMPA receptors by TARP-γ8. J Gen Physiol 2021; 152:jgp.201912451. [PMID: 31748249 PMCID: PMC7034100 DOI: 10.1085/jgp.201912451] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2019] [Accepted: 11/04/2019] [Indexed: 01/24/2023] Open
Abstract
Using single-channel recordings and single-molecule FRET, Carrillo et al. show that resensitization of α-amino-5-methyl-3-hydroxy-4-isoxazole propionate receptors by the regulatory protein γ8 is characterized by transitions to high conductance levels associated with tighter conformational coupling similar to those seen in the presence of cyclothiazide. Fast excitatory synaptic transmission in the mammalian central nervous system is mediated by glutamate-activated α-amino-5-methyl-3-hydroxy-4-isoxazole propionate (AMPA) receptors. In neurons, AMPA receptors coassemble with transmembrane AMPA receptor regulatory proteins (TARPs). Assembly with TARP γ8 alters the biophysical properties of the receptor, producing resensitization currents in the continued presence of glutamate. Using single-channel recordings, we show that under resensitizing conditions, GluA2 AMPA receptors primarily transition to higher conductance levels, similar to activation of the receptors in the presence of cyclothiazide, which stabilizes the open state. To study the conformation associated with these states, we have used single-molecule FRET and show that this high-conductance state exhibits tighter coupling between subunits in the extracellular parts of the receptor. Furthermore, the dwell times for the transition from the tightly coupled state to the decoupled states correlate to longer open durations of the channels, thus correlating conformation and function at the single-molecule level.
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Ramakrishnan KM, Jayaraman V, Ramachandran K, Mathivanan T, Ravi R. Burn injury from cooking gas flame in a child of 6 years. INDIAN JOURNAL OF BURNS 2021. [DOI: 10.4103/ijb.ijb_28_21] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
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31
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Durham RJ, Latham DR, Sanabria H, Jayaraman V. Structural Dynamics of Glutamate Signaling Systems by smFRET. Biophys J 2020; 119:1929-1936. [PMID: 33096078 PMCID: PMC7732771 DOI: 10.1016/j.bpj.2020.10.009] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 10/06/2020] [Accepted: 10/13/2020] [Indexed: 12/19/2022] Open
Abstract
Single-molecule Förster resonance energy transfer (smFRET) is a powerful technique for investigating the structural dynamics of biological macromolecules. smFRET reveals the conformational landscape and dynamic changes of proteins by building on the static structures found using cryo-electron microscopy, x-ray crystallography, and other methods. Combining smFRET with static structures allows for a direct correlation between dynamic conformation and function. Here, we discuss the different experimental setups, fluorescence detection schemes, and data analysis strategies that enable the study of structural dynamics of glutamate signaling across various timescales. We illustrate the versatility of smFRET by highlighting studies of a wide range of questions, including the mechanism of activation and transport, the role of intrinsically disordered segments, and allostery and cooperativity between subunits in biological systems responsible for glutamate signaling.
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Bhatia NK, Carrillo E, Durham RJ, Berka V, Jayaraman V. Allosteric Changes in the NMDA Receptor Associated with Calcium-Dependent Inactivation. Biophys J 2020; 119:2349-2359. [PMID: 33098865 DOI: 10.1016/j.bpj.2020.08.045] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Revised: 08/14/2020] [Accepted: 08/20/2020] [Indexed: 01/07/2023] Open
Abstract
N-methyl-D-aspartate (NMDA) receptors mediate synaptic excitatory signaling in the mammalian central nervous system by forming calcium-permeable transmembrane channels upon binding glutamate and coagonist glycine. Ca2+ influx through NMDA receptors leads to channel inactivation through a process mediated by resident calmodulin bound to the intracellular C-terminal segment of the GluN1 subunit of the receptor. Using single-molecule FRET investigations, we show that in the presence of calcium-calmodulin, the distance across the two GluN1 subunits at the entrance of the first transmembrane segment is shorter and the bilobed cleft of the glycine-binding domain in GluN1 is more closed when bound to glycine and glutamate relative to what is observed in the presence of barium-calmodulin. Consistent with these observations, the glycine deactivation rate is slower in the presence of calcium-calmodulin. Taken together, these results show that the binding of calcium-calmodulin to the C-terminus has long-range allosteric effects on the extracellular segments of the receptor that may contribute to the calcium-dependent inactivation.
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Meyer A, Cottrell C, Reshmi S, Pfau R, Lee K, Mathew M, Corsmeier D, Jayaraman V, Dave-Wala A, Hashimoto S, Matthews T, Mouhlas D, Stein M, Waldrop M, Flanigan K. NEW GENES AND DISEASES / NGS & RELATED TECHNIQUES. Neuromuscul Disord 2020. [DOI: 10.1016/j.nmd.2020.08.325] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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34
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Durham RJ, Paudyal N, Carrillo E, Bhatia NK, Maclean DM, Berka V, Dolino DM, Gorfe AA, Jayaraman V. Conformational spread and dynamics in allostery of NMDA receptors. Proc Natl Acad Sci U S A 2020; 117:3839-3847. [PMID: 32015122 PMCID: PMC7035515 DOI: 10.1073/pnas.1910950117] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
Allostery can be manifested as a combination of repression and activation in multidomain proteins allowing for fine tuning of regulatory mechanisms. Here we have used single molecule fluorescence resonance energy transfer (smFRET) and molecular dynamics simulations to study the mechanism of allostery underlying negative cooperativity between the two agonists glutamate and glycine in the NMDA receptor. These data show that binding of one agonist leads to conformational flexibility and an increase in conformational spread at the second agonist site. Mutational and cross-linking studies show that the dimer-dimer interface at the agonist-binding domain mediates the allostery underlying the negative cooperativity. smFRET on the transmembrane segments shows that they are tightly coupled in the unliganded and single agonist-bound form and only upon binding both agonists the transmembrane domain explores looser packing which would facilitate activation.
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Durham RJ, Paudyal N, Carrillo E, MacLean DM, Berka V, Dolino DM, Kaur Bhatia N, Gorfe AA, Jayaraman V. Role of Conformational Dynamics in NMDA Receptor Negative Cooperativity. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.3178] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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36
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Keshari AK, Prabhakar Rao J, Sree Rama Murthy A, Jayaraman V. Design and development of instrumentation for the measurement of sensor array responses. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2020; 91:024101. [PMID: 32113421 DOI: 10.1063/1.5128967] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2019] [Accepted: 01/30/2020] [Indexed: 06/10/2023]
Abstract
Indigenous instrumentation has been designed and developed for the measurement of the concentration of analytes from eight conductometric metal oxide sensors. The hardware scheme of instrumentation is based on the astable multivibrator configuration. The hardware measures the resistance output from the sensors, conditions, processes, and displays the data on the liquid crystal display. An 8051 based processor averages the data, converts them into engineering units, and sends them to remote PC through ethernet communication for post-data analysis. A graphical user interface (GUI) is developed to acquire, monitor, and display the eight channels' sensor output. GUI plots the online data and offline data as a popup window. The hardware and software of the instrument were tested with standard resistors for calibration and found that in-house developed instrumentation is able to measure with an accuracy of ±0.5% with a resolution of 500 Ω. The instrument has been tested with a semiconductor metal oxide sensor, viz., chromium niobate (CrNbO4).
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37
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Srivastava PP, Litwin DB, Hong L, Sarkar-Banerjee S, Dolino DM, Zhou Y, Jayaraman V, Hancock JF, Gorfe AA. Dynamics of Oncogenic KRAS Mutants on Bilayer Surfaces. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.2751] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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38
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Paudyal N, Litwin DB, Berka V, Carrillo E, Jayaraman V. Understanding the Mechanism of Agonist Efficacy in a Full-Length GluK2/K5 Using Single Molecule FRET. Biophys J 2020. [DOI: 10.1016/j.bpj.2019.11.3170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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39
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Joshi S, Ajikumar P, Sivasubramanian K, Jayaraman V. Synthesis, characterization and low energy photon attenuation studies of bone tissue substitutes. JOURNAL OF POLYMER ENGINEERING 2020. [DOI: 10.1515/polyeng-2019-0179] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
AbstractEpoxy composites with different weight percentages of calcium carbonate and calcium phosphate were synthesized as bone tissue substitutes (BTS) for internal dosimetry. The Fourier-transform infrared spectroscopy analysis confirmed that no chemical reaction occurred between the polymer and the fillers. Thermogravimetric analysis also showed improvement in the thermal properties of the composites due to the fillers. The uniform distribution of fillers in the epoxy matrix was established by X-ray radiography. The attenuation behavior of BTS was probed for low energy γ source 241Am (59.5 keV) using planar HPGe detector. The measured mass attenuation coefficients of BTS were found to match with the values calculated using XCOM software. The radiological properties derived for these composites were found to be on par with those of ICRU-44 cortical bone and B-100 bone equivalent plastic.
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Meenakshi J, Jayaraman V, Ramakrishnan KM, Babu M. Keloids and hypertrophic scars: a review. Indian J Plast Surg 2020. [DOI: 10.1055/s-0039-1699101] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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41
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Prakash P, Litwin D, Liang H, Sarkar-Banerjee S, Dolino D, Zhou Y, Hancock JF, Jayaraman V, Gorfe AA. Dynamics of Membrane-Bound G12V-KRAS from Simulations and Single-Molecule FRET in Native Nanodiscs. Biophys J 2020; 118:532. [PMID: 31924346 DOI: 10.1016/j.bpj.2019.12.032] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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42
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Ramakrishnan KM, Ramachandran B, Ravikumar KG, Ravikumar K, Putli S, Jayaraman V, Mathivanan T, Ravi R, Gnanamani S, Babu M. Electrical injury in pediatric patients – A case series. INDIAN JOURNAL OF BURNS 2020. [DOI: 10.4103/ijb.ijb_27_19] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
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43
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Litwin DB, Paudyal N, Carrillo E, Berka V, Jayaraman V. The structural arrangement and dynamics of the heteromeric GluK2/GluK5 kainate receptor as determined by smFRET. BIOCHIMICA ET BIOPHYSICA ACTA. BIOMEMBRANES 2020; 1862:183001. [PMID: 31194959 PMCID: PMC6899175 DOI: 10.1016/j.bbamem.2019.05.023] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2019] [Revised: 05/14/2019] [Accepted: 05/31/2019] [Indexed: 01/08/2023]
Abstract
Kainate receptors, which are glutamate activated excitatory neurotransmitter receptors, predominantly exist as heteromers of GluK2 and GluK5 subunits in the mammalian central nervous system. There are currently no structures of the full-length heteromeric kainate receptors. Here, we have used single molecule FRET to determine the specific arrangement of the GluK2 and GluK5 subunits within the dimer of dimers configuration in a full-length receptor. Additionally, we have also studied the dynamics and conformational heterogeneity of the amino-terminal and agonist-binding domain interfaces associated with the resting and desensitized states of the full-length heteromeric kainate receptor using FRET-based methods. The smFRET data are compared to similar experiments performed on the homomeric kainate receptor to provide insight into the differences in conformational dynamics that distinguish the two functionally. This article is part of a Special Issue entitled: Molecular biophysics of membranes and membrane proteins.
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Litwin DB, Durham RJ, Jayaraman V. Single-Molecule FRET Methods to Study Glutamate Receptors. Methods Mol Biol 2019; 1941:3-16. [PMID: 30707423 DOI: 10.1007/978-1-4939-9077-1_1] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Single-molecule fluorescence energy transfer methods allow us to determine the complete structural landscape between the donor and acceptor fluorophores introduced on the protein of interest. This method is particularly attractive to study ion channel proteins as single-molecule current recordings have been used to study the function of these proteins for several decades. Here we describe the smFRET method used to study glutamate receptors.
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Chen J, Li L, Chen SR, Chen H, Xie JD, Sirrieh RE, MacLean DM, Zhang Y, Zhou MH, Jayaraman V, Pan HL. The α2δ-1-NMDA Receptor Complex Is Critically Involved in Neuropathic Pain Development and Gabapentin Therapeutic Actions. Cell Rep 2019; 22:2307-2321. [PMID: 29490268 PMCID: PMC5873963 DOI: 10.1016/j.celrep.2018.02.021] [Citation(s) in RCA: 173] [Impact Index Per Article: 34.6] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2017] [Revised: 12/20/2017] [Accepted: 02/06/2018] [Indexed: 12/13/2022] Open
Abstract
α2δ-1, commonly known as a voltage-activated Ca2+ channel subunit, is a binding site of gabapentinoids used to treat neuropathic pain and epilepsy. However, it is unclear how α2δ-1 contributes to neuropathic pain and gabapentinoid actions. Here, we show that Cacna2d1 overexpression potentiates presynaptic and postsynaptic NMDAR activity of spinal dorsal horn neurons to cause pain hypersensitivity. Conversely, Cacna2d1 knockdown or ablation normalizes synaptic NMDAR activity increased by nerve injury. α2δ-1 forms a heteromeric complex with NMDARs in rodent and human spinal cords. The α2δ-1-NMDAR interaction predominantly occurs through the C terminus of α2δ-1 and promotes surface trafficking and synaptic targeting of NMDARs. Gabapentin or an α2δ-1 C terminus-interfering peptide normalizes NMDAR synaptic targeting and activity increased by nerve injury. Thus, α2δ-1 is an NMDAR-interacting protein that increases NMDAR synaptic delivery in neuropathic pain. Gabapentinoids reduce neuropathic pain by inhibiting forward trafficking of α2δ-1-NMDAR complexes.
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Litwin DB, Carrillo E, Shaikh SA, Berka V, Jayaraman V. The structural arrangement at intersubunit interfaces in homomeric kainate receptors. Sci Rep 2019; 9:6969. [PMID: 31061516 PMCID: PMC6502836 DOI: 10.1038/s41598-019-43360-x] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Accepted: 04/23/2019] [Indexed: 02/02/2023] Open
Abstract
Kainate receptors are glutamate-gated cation-selective channels involved in excitatory synaptic signaling and are known to be modulated by ions. Prior functional and structural studies suggest that the dimer interface at the agonist-binding domain plays a key role in activation, desensitization, and ion modulation in kainate receptors. Here we have used fluorescence-based methods to investigate the changes and conformational heterogeneity at these interfaces associated with the resting, antagonist-bound, active, desensitized, and ion-modulated states of the receptor. These studies show that in the presence of Na+ ions the interfaces exist primarily in the coupled state in the apo, antagonist-bound and activated (open channel) states. Under desensitizing conditions, the largely decoupled dimer interface at the agonist-binding domain as seen in the cryo-EM structure is one of the states observed. However, in addition to this state there are several additional states with lower levels of decoupling. Replacing Na+ with Cs+ does not alter the FRET efficiencies of the states significantly, but shifts the population to the more decoupled states in both resting and desensitized states, which can be correlated with the lower activation seen in the presence of Cs+.
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Chatterjee S, Ade C, Nurik CE, Carrejo NC, Dutta C, Jayaraman V, Landes CF. Correction to “Phosphorylation Induces Conformational Rigidity at the C-Terminal Domain of AMPA Receptors”. J Phys Chem B 2019; 123:1214. [DOI: 10.1021/acs.jpcb.9b00258] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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48
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Litwin DB, Carrillo E, Shaikh S, Berka V, Jayaraman V. The Structural Arrangement and Dynamics of Homomeric Kainate Receptors Determined by smFRET. Biophys J 2019. [DOI: 10.1016/j.bpj.2018.11.602] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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49
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Carrillo Flores E, Shaikh SA, Jayaraman V. Mechanism of AMPA Receptor Modulation by Gamma-8. Biophys J 2019. [DOI: 10.1016/j.bpj.2018.11.606] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
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50
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Prakash P, Litwin D, Liang H, Sarkar-Banerjee S, Dolino D, Zhou Y, Hancock JF, Jayaraman V, Gorfe AA. Dynamics of Membrane-Bound G12V-KRAS from Simulations and Single-Molecule FRET in Native Nanodiscs. Biophys J 2019; 116:179-183. [PMID: 30616834 PMCID: PMC6350008 DOI: 10.1016/j.bpj.2018.12.011] [Citation(s) in RCA: 48] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2018] [Revised: 12/06/2018] [Accepted: 12/14/2018] [Indexed: 12/30/2022] Open
Abstract
Recent studies have shown that the small GTPase KRAS adopts multiple orientations with respect to the plane of anionic model membranes, whereby either the three C-terminal helices or the three N-terminal β-strands of the catalytic domain face the membrane. This has functional implications because, in the latter, the membrane occludes the effector-interacting surface. However, it remained unclear how membrane reorientation occurs and, critically, whether it occurs in the cell in which KRAS operates as a molecular switch in signaling pathways. Herein, using data from a 20 μs-long atomistic molecular dynamics simulation of the oncogenic G12V-KRAS mutant in a phosphatidylcholine/phosphatidylserine bilayer, we first show that internal conformational fluctuations of flexible regions in KRAS result in three distinct membrane orientations. We then show, using single-molecule fluorescence resonance energy transfer measurements in native lipid nanodiscs derived from baby hamster kidney cells, that G12V-KRAS samples three conformational states that correspond to the predicted orientations. The combined results suggest that relatively small energy barriers separate orientation states and that signaling-competent conformations dominate the overall population.
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