A discrete alcohol pocket involved in GIRK channel activation.
- Authors
- Aryal, Prafulla; Dvir, Hay; Choe, Senyon; Slesinger, Paul A
- Year
- 2009
- Journal
- Nature neuroscience
- PMID
- 19561601
- DOI
- 10.1038/nn.2358
- PMCID
- PMC2717173
Ethanol modifies neural activity in the brain by modulating ion channels. Ethanol activates G protein-gated inwardly rectifying K(+) channels, but the molecular mechanism is not well understood. Here, we used a crystal structure of a mouse inward rectifier containing a bound alcohol and structure-based mutagenesis to probe a putative alcohol-binding pocket located in the cytoplasmic domains of GIRK channels. Substitutions with bulkier side-chains in the alcohol-binding pocket reduced or eliminated activation by alcohols. By contrast, alcohols inhibited constitutively open channels, such as IRK1 or GIRK2 engineered to strongly bind PIP(2). Mutations in the hydrophobic alcohol-binding pocket of these channels had no effect on alcohol-dependent inhibition, suggesting an alternate site is involved in inhibition. Comparison of high-resolution structures of inwardly rectifying K(+) channels suggests a model for activation of GIRK channels using this hydrophobic alcohol-binding pocket. These results provide a tool for developing therapeutic compounds that could mitigate the effects of alcohol.
A conserved alcohol-binding pocket in IRK1 and GIRK2 channelsa) CPK representation of the cytoplasmic domains from two subunits of IRK1 in complex with an alcohol, MPD (PDB: 2GIX). The pocket for MPD is formed by three structural elements: the N-terminal domain (blue) and the Ξ²L-Ξ²M ribbon (orange) from one subunit, and the Ξ²D-Ξ²E ribbon (green) from an adjacent subunit. Inset, schematic of IRK1 (red) shows the major structural elements of the subunit including pore loop and helix, two transmembrane domains, and N- and C-terminals used in the structure (dashed box). b,c) Detailed structural views of amino acids forming the hydrophobic alcohol pocket of IRK1 with MPD (ball and stick) (b) and a putative hydrophobic alcohol pocket in GIRK2 (PDB: 2E4F) (c). Amino acid residues shown in stick format are colored according to the domain they originate from; as MPD is shown in ball-and-stick format. The putative position of MPD in the GIRK2 (dashed circle) was obtained by superposition of two adjacent cytoplasmic domains from IRK1 structure and corresponding subunits from GIRK2 structure. d) Sequence alignment for the three domains comprising the hydrophobic alcohol pocket in IRK1 and GIRK2 channels. Boxes indicate amino acids that form hydrophobic and hydrogen-bond interactions in IRK1-MPD, and are conserved in GIRK2. βHGβ in the N-terminal domain of IRK1 originates from the polypeptide linker in the IRK1-MPD structure. e) Current-voltage plots for GIRK2 channels recorded in the presence of 20K (blue), 20K plus 1 mM Ba++ (black) or 20K plus 100 mM MPD (red). Currents were elicited by voltage ramps from β100 mV to +50 mV. MPD-induced current was 246% Β± 27% (n=5, mean and s.e.m.) of basal K+ current (Ba++ sensitive).
LLM interpretation
This figure consists of structural models, a sequence alignment, and an electrophysiology plot comparing IRK1 and GIRK2 channels. Panels (a-c) use CPK and stick representations to show a conserved alcohol-binding pocket formed by the N-terminal (blue), $\beta$L-$\beta$M (orange), and $\beta$D-$\beta$E (green) domains, with MPD shown in ball-and-stick format. Panel (d) provides a sequence alignment highlighting conserved hydrophobic and hydrogen-bonding residues within these three domains. Panel (e) shows a current-voltage (I-V) plot for GIRK2, where the addition of 100 mM MPD (red) increases the current compared to basal (blue) and $\text{Ba}^{++}$-blocked (black) conditions.
MPD activates GIRK2 in a manner similar to other alcoholsa) The inward current through GIRK2 channels plotted as a function of time (at β100 mV) shows the response to the increasing concentrations of MPD and to 1 mM Ba++. Dashed line shows zero current level. b) Dose-response curves are shown for MPD (n=6), 1-PrOH (n=6), and EtOH (n=6). The fold-increase was calculated by normalizing to the basal K+ current (Ba++-sensitive). c-e) Chelating GΞ²Ξ³ with m-Phos attenuates m2R- but not alcohol-mediated activation of GIRK2. Current responses recorded at β100 mV are shown for m2R/GIRK2 (c) or m2R/GIRK2/m-Phos (d) in response to 100 mM 1-PrOH, 100 mM MPD, 100 mM EtOH, or 5 ΞΌM carbachol. e) Bar graphs show the mean percentage alcohol and carbachol responses (Β± s.e.m.), normalized to the Ba++-sensitive basal current, in the absence (solid, n=4) or presence of m-Phos (grey, n=7). Asterisks indicate statistical significant difference from wild-type (P < 0.05).
LLM interpretation
This figure consists of electrophysiological traces and quantitative plots analyzing the activation of GIRK2 channels by alcohols. Panel (a) shows a current trace increasing with MPD concentration, while panel (b) presents dose-response curves showing a fold-increase in current for 1-PrOH, MPD, and Ethanol. Panels (c) and (d) compare current responses to alcohols and carbachol (Carb) with and without the GΞ²Ξ³ chelator m-Phos, and panel (e) uses a bar graph to show that m-Phos significantly attenuates the carbachol response (indicated by an asterisk, P < 0.05) but not the alcohol-mediated responses.
Ala/Trp scan of the hydrophobic alcohol-binding pocket in GIRK2a) Ribbon structure shows amino acids that line the hydrophobic alcohol pocket in GIRK2. b) Summary table of Ala/Trp mutagenesis. Basal K+ currents (Ba++-sensitive) were divided into three groups; < β1 pApFβ1 (ΓΈ), β1 to β5 pApFβ1 (+) and > β5 pApFβ1 (++) (n = number of recordings). Surface expression on the plasma membrane was assessed in separate experiments with HA-tagged channels; detected on the surface (+) or detected only in cytoplasm (β). See Supplemental Fig. S1. Schematic shows location of HA tag (βvβ) in GIRK2 (grey). c) Bar graph shows the mean ethanol percentage response, normalized to the basal K+ current, for different mutant channels (Β± s.e.m.). L257W showed a significant statistical decrease in EtOH response (*P < 0.05 vs. wild-type).
LLM interpretation
This figure consists of a ribbon structure (a), a summary table with a schematic (b), and a bar graph (c) analyzing the hydrophobic alcohol-binding pocket of GIRK2. The table categorizes various Ala/Trp mutations based on basal $K^+$ current levels and surface expression. The bar graph shows the mean ethanol percentage response for wild-type and mutant channels, highlighting a statistically significant decrease in response for the L257W mutant (*P < 0.05 vs. wild-type).
Comprehensive mutagenesis of GIRK2-L257 in Ξ²D-Ξ²E ribbon of hydrophobic alcohol-binding pocket reveals changes in alcohol- and GΞ²Ξ³-activated currentsa) Bar graph shows the mean (Β± s.e.m.) amplitude of basal K+ current (Ba++-sensitive) for substitutions of increasing molecular side-chain volume at GIRK2-L257: Gly (n=7), Ala (n=9), Ser (n=7), Cys (n=8), Asp (n=7), Asn (n=6), Ile (n=7), Leu (wt; n=34; grey bar), Lys (n=7), Met (n=8), Phe (n=7), Tyr (n=9) and Trp (n=9). b-e) Inward K+ currents for wild-type GIRK2 (b) and the indicated GIRK2-L257 mutants (c-e) in response to 100 mM 1-PrOH, 100 mM MPD, 100 mM EtOH, 5 ΞΌM carbachol, or 1 mM Ba++. Inset shows the approximate position of the C-terminal mutation.
LLM interpretation
This figure consists of a bar graph (a) and four current trace plots (b-e) analyzing GIRK2-L257 mutations. The bar graph shows basal $K^+$ current amplitudes for various amino acid substitutions, with the wild-type (L) and larger side-chain mutants (F, Y, W) exhibiting higher currents than smaller substitutions (G, A, S, C, D, N), some of which are marked with asterisks for significance. The current traces compare the responses of wild-type (b), L257A (c), L257Y (d), and L257W (e) GIRK2 to 1-PrOH, MPD, EtOH, carbachol, and $Ba^{++}$.
Reduced alcohol activation with increasing bulkiness of amino acid substitutions at GIRK2-L257a) Bar graph shows the mean percentage response to different alcohols and carbachol (Β± s.e.m.), normalized to the basal K+ current (Ba++-sensitive). Upward response indicates inhibition. Amino acid substitutions are arranged by increasing side-chain volume (Γ 3, see inset). Asterisk indicates significant statistical difference (P < 0.05 vs. Leu). b,c) Dose-response curves are shown for GIRK2-L257, GIRK2-L257Y and GIRK2-L257W channels for 1-PrOH (b) and MPD (c). Note suppression of alcohol activation at all concentrations tested.
LLM interpretation
This figure consists of a bar graph (a) and two dose-response curves (b, c) analyzing the effect of amino acid substitutions at GIRK2-L257 on alcohol and carbachol activation. The bar graph shows that as the side-chain volume of the substitution increases (A < C < L < M < Y < W), the percentage response to alcohols (EtOH, 1-PrOH, MPD) generally decreases, while the response to carbachol varies. Dose-response curves for 1-PrOH and MPD demonstrate a marked suppression of fold-response in the Tyr (Y) and Trp (W) mutants compared to the Leu (L) wild-type. Asterisks in panel (a) denote statistically significant differences (P < 0.05) relative to the Leu substitution.
Mutations in the hydrophobic alcohol-binding pocket of GIRK4* alter alcohol-activated currentsa) Mean basal K+ currents (Ba++-sensitive) measured for Ala (n=8), Leu (wt; grey bar, n=8), Tyr (n=8), and Trp (n=8) substitutions at GIRK4*-L252. There are no statistical differences in basal currents (P > 0.05 vs. Leu). b-e) Inward K+ currents for GIRK4* (b) and different GIRK4*-L252 mutants (c-e) in response to 100 mM 1-PrOH, 100 mM MPD, 100 mM EtOH, 5 ΞΌM carbachol, or 1 mM Ba++. f) Bar graphs show the mean percentage responses to different alcohols and carbachol, normalized to the basal K+ current (Ba++-sensitive). Amino acid substitutions are arranged by increasing side-chain volume (Γ 3) (see inset). Asterisk indicates significant statistical difference (P < 0.05 vs. Leu). Channel schematics show the approximate position of the pore-helix (white ellipse) mutation, for making GIRK4*, and the C-terminal mutation (black circle). All values are mean Β± s.e.m.
LLM interpretation
This figure consists of a bar chart (a), four current-trace recordings (b-e), and a grouped bar chart (f) analyzing GIRK4* mutations at position L252. Panel (a) shows no significant difference in basal $K^+$ currents across Ala, Leu (wt), Tyr, and Trp substitutions. Panels (b-e) display inward current responses to 1-PrOH, MPD, EtOH, carbachol (Carb), and $Ba^{++}$ for each variant. Panel (f) quantifies these responses normalized to basal current, showing that as side-chain volume increases (A $\rightarrow$ L $\rightarrow$ Y $\rightarrow$ W), alcohol and carbachol responses generally decrease, with significant reductions (indicated by asterisks) for Tyr and Trp compared to Leu.
Mutations in the hydrophobic alcohol-binding pocket of IRK1 have no effect on alcohol-dependent inhibitiona) Current-voltage plots for IRK1 channels are shown for 20K (blue), 20K plus 1 mM Ba++ (black) or 20K plus 100 mM MPD (red). MPD inhibited the basal K+ current (Ba++-sensitive) by 53.1%Β± 4.1% (n=8). b) Dose-response curve is shown for MPD inhibition of IRK1 channel. Smooth curve shows best fit using the Hill equation, with an IC50 of 104 Β± 23 mM and Hill coefficient of 0.93 Β± 0.03 (n=8). c) Structural view of amino acids that line the hydrophobic alcohol pocket in IRK1. d) Bar graph shows mean IC50βs for MPD-dependent inhibition of IRK1 (n=8), IRK1-F47W (n=7), IRK1-L232W (n=7), IRK1-L245W (n=6), IRK1-L330W (n=6). There is no statistical difference compared to wild-type IRK1 (P > 0.05). e) Current-voltage plots are shown for GIRK2-PIP2 (GIRK2 engineered with high affinity PIP2 binding domain from IRK1) channels recorded in the presence of 20K (blue), 20K plus 1 mM Ba++ (black) or 20K plus 100 mM MPD (red). f) Dose-response curves for MPD-dependent inhibition of GIRK2-PIP2 (solid circle), GIRK2-PIP2-L257W (open circle) and GIRK2-PIP2-S148T (solid triangle). Smooth curves show best fit using the Hill equation and having IC50βs and Hill coefficients of 7.7 Β± 1.0 mM and 0.66 Β± 0.03 (n=5) for GIRK2-PIP2, 5.2 Β± 1.0 mM and 0.77 Β± 0.04 (n=5) for GIRK2-PIP2-L257W, and 147.0 Β± 31.5 mM and 0.67 Β± 0.05 (n=6) for GIRK2-PIP2βS148T. All values are mean Β± s.e.m.
LLM interpretation
This figure consists of current-voltage plots (a, e), dose-response curves (b, f), a structural diagram (c), and a bar graph (d) analyzing the inhibition of IRK1 and GIRK2-PIP2 channels by MPD. The current-voltage plots show that MPD inhibits basal K+ currents in both channel types, while the bar graph (d) indicates no significant difference in IC50 values between wild-type IRK1 and several hydrophobic pocket mutations (P > 0.05). Dose-response curves (f) demonstrate that the S148T mutation in GIRK2-PIP2 significantly increases the IC50 for MPD compared to the wild-type and L257W variants.
Model for alcohol-dependent activation of GIRK channelsa) Bar graph shows the mean percentage EtOH response (activation or inhibition normalized to wild-type) for a Trp mutation in four different channels, GIRK2-L257W (n=9), GIRK4-L252W (n=8), IRK1-L245W (n=8) and GIRK2-PIP2-L257W (n=5). Only mutations in alcohol-binding pocket of wild-type GIRK channels affect the response to alcohol. b) Top, schematic of inward rectifier shows location of alcohol-binding pocket in cytoplasmic domains, two gates (G-loop and M2 transmembrane; black triangles) and pore-helix region (red ellipse). PIP2 is enriched in lower leaflet of bilayer (orange). Below, molecular surface representations of the alcohol pocket without (Leu), with MPD (Leu+MPD) and modeled with L257W (Trp), using the IRK1-MPD structure as a guide. c) Left, alignment of the putative closed state of GIRK1 chimeric channel (GIRK1-closed; green) (PDB:2QKS) with the IRK1-MPD structure (grey) (PDB:2GIX). Spaghetti structures show two adjacent cytoplasmic subunits (subunits D and A) and the hydrophobic alcohol pocket at the cytoplasmic subunit interface. Right, zoom shows alignment of the N-terminal domain, Ξ²D-Ξ²E and Ξ²L-Ξ²M ribbons from the IRK1-MPD (grey), GIRK1-open (orange) and GIRK1-closed (green) structures. IRK1-MPD aligns better with the putative open state of GIRK1. Note the significant displacement in the Ξ²L-Ξ²M beta ribbon element (arrow) and the side-chains of hydrophobic amino acids in the two structures. GIRK1-closed but not GIRK1-open has a collapsed alcohol-binding pocket, due to interaction and rotation of F46 (IRK1-F47), L246 (IRK1-L245) and F338 (IRK1-Y337). GIRK1-L333 in the Ξ²L-Ξ²M domain, implicated previously in GΞ²Ξ² gating of GIRK channels17-19, is shown for reference.
LLM interpretation
This figure presents a model for alcohol-dependent activation of GIRK channels. Panel (a) is a bar graph showing that ethanol response is significantly reduced in GIRK2-L257W and GIRK4-L252W mutations (marked with asterisks) compared to IRK1-L245W and GIRK2-PIP2-L257W. Panel (b) includes a channel schematic and molecular surface representations of the alcohol-binding pocket in Leu, Leu+MPD, and Trp states. Panel (c) shows structural alignments of IRK1-MPD, GIRK1-open, and GIRK1-closed states, with a zoomed-in view highlighting the displacement of the $\beta$L-$\beta$M ribbon and the collapse of the alcohol-binding pocket in the closed state.
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| A computational model predicts that GΞ²Ξ³ acts at a cleft between channel subunits to activate GIRK1 channels. | Mahajan R et al. | β | 2013 | β |
| Amyloid-Ξ² induces synaptic dysfunction through G protein-gated inwardly rectifying potassium channels in the fimbria-CA3 hippocampal synapse. | Nava-Mesa MO et al. | β | 2013 | β |
| A potential molecular target for morphological defects of fetal alcohol syndrome: Kir2.1. | Bates EA | β | 2013 | β |
| Discovery and SAR of a novel series of GIRK1/2 and GIRK1/4 activators. | Ramos-Hunter SJ et al. | β | 2013 | β |
| Discovery of 'molecular switches' within a GIRK activator scaffold that afford selective GIRK inhibitors. | Wen W et al. | β | 2013 | β |
| Distinct sensitivity of slo1 channel proteins to ethanol. | Liu J et al. | β | 2013 | β |
| GABAB receptor activation attenuates the stimulant but not mesolimbic dopamine response to ethanol in FAST mice. | Holstein SE et al. | β | 2013 | β |
| Homology model and targeted mutagenesis identify critical residues for arachidonic acid inhibition of Kv4 channels. | Heler R et al. | β | 2013 | β |
| Inhibition of rat muscle and liver phosphofructokinases by high doses of ethanol. | Lelevich SV et al. | β | 2013 | β |
| ML297 (VU0456810), the first potent and selective activator of the GIRK potassium channel, displays antiepileptic properties in mice. | Kaufmann K et al. | β | 2013 | β |
| Molecular mechanism underlying ethanol activation of G-protein-gated inwardly rectifying potassium channels. | Bodhinathan K et al. | β | 2013 | β |
| Secondary anionic phospholipid binding site and gating mechanism in Kir2.1 inward rectifier channels. | Lee SJ et al. | β | 2013 | β |
| Sex differences in neuroadaptation to alcohol and withdrawal neurotoxicity. | Sharrett-Field L et al. | β | 2013 | β |
| Structural basis for potentiation by alcohols and anaesthetics in a ligand-gated ion channel. | Sauguet L et al. | β | 2013 | β |
| Synaptic effects induced by alcohol. | Lovinger DM et al. | β | 2013 | β |
| The size of the unbranched aliphatic chain determines the immunomodulatory potency of short and long chain n-alkanols. | Carignan D et al. | β | 2013 | β |
| Ethanol alters opioid regulation of Ca(2+) influx through L-type Ca(2+) channels in PC12 cells. | Gruol DL et al. | β | 2012 | β |
| Family-based genome-wide association study of frontal ΞΈ oscillations identifies potassium channel gene KCNJ6. | Kang SJ et al. | β | 2012 | β |
| Short-term immunological effects of non-ethanolic short-chain alcohols. | DΓ©sy O et al. | β | 2012 | β |
| The molecular mechanism by which PIP(2) opens the intracellular G-loop gate of a Kir3.1 channel. | Meng XY et al. | β | 2012 | β |
| Virogenetic and optogenetic mechanisms to define potential therapeutic targets in psychiatric disorders. | Han MH et al. | β | 2012 | β |
| Alcohol-binding sites in distinct brain proteins: the quest for atomic level resolution. | Howard RJ et al. | β | 2011 | β |
| Alcohol's effects on lipid bilayer properties. | IngΓ³lfsson HI et al. | β | 2011 | β |
| Ethanol affects striatal interneurons directly and projection neurons through a reduction in cholinergic tone. | Blomeley CP et al. | β | 2011 | β |
| Naringin directly activates inwardly rectifying potassium channels at an overlapping binding site to tertiapin-Q. | Yow TT et al. | β | 2011 | β |
| Alcohol in essential tremor and other movement disorders. | Mostile G et al. | β | 2010 | β |
| Antecedent ethanol attenuates cerebral ischemia/reperfusion-induced leukocyte-endothelial adhesive interactions and delayed neuronal death: role of large conductance, Ca2+-activated K+ channels. | Wang Q et al. | β | 2010 | β |
| Emerging roles for G protein-gated inwardly rectifying potassium (GIRK) channels in health and disease. | LΓΌscher C et al. | β | 2010 | β |
| Ethanol action on dopaminergic neurons in the ventral tegmental area: interaction with intrinsic ion channels and neurotransmitter inputs. | Morikawa H et al. | β | 2010 | β |
| Gating of a G protein-sensitive mammalian Kir3.1 prokaryotic Kir channel chimera in planar lipid bilayers. | Leal-Pinto E et al. | β | 2010 | β |
| G protein {beta}{gamma} gating confers volatile anesthetic inhibition to Kir3 channels. | Styer AM et al. | β | 2010 | β |
| Methanol induces a discrete transcriptional dysregulation that leads to cytokine overproduction in activated lymphocytes. | DΓ©sy O et al. | β | 2010 | β |
| Mutagenesis and functional analysis of ion channels heterologously expressed in mammalian cells. | Balana B et al. | β | 2010 | β |
| Mapping a barbiturate withdrawal locus to a 0.44 Mb interval and analysis of a novel null mutant identify a role for Kcnj9 (GIRK3) in withdrawal from pentobarbital, zolpidem, and ethanol. | Kozell LB et al. | β | 2009 | β |