Ligand binding and conformational changes of SUR1 subunit in pancreatic ATP-sensitive potassium channels

Jing-Xiang Wu, Dian Ding, Mengmeng Wang, Yunlu Kang, Xin Zeng, Lei Chen

PDF(3113 KB)
PDF(3113 KB)
Protein Cell ›› 2018, Vol. 9 ›› Issue (6) : 553-567. DOI: 10.1007/s13238-018-0530-y
RESEARCH ARTICLE
RESEARCH ARTICLE

Ligand binding and conformational changes of SUR1 subunit in pancreatic ATP-sensitive potassium channels

Author information +
History +

Abstract

ATP-sensitive potassium channels (KATP) are energy sensors on the plasma membrane. By sensing the intracellular ADP/ATP ratio of β-cells, pancreatic KATP channels control insulin release and regulate metabolism at the whole body level. They are implicated in many metabolic disorders and diseases and are therefore important drug targets. Here, we present three structures of pancreatic KATP channels solved by cryoelectron microscopy (cryo-EM), at resolutions ranging from 4.1 to 4.5 Å. These structures depict the binding site of the antidiabetic drug glibenclamide, indicate how Kir6.2 (inward-rectifying potassium channel 6.2) N-terminus participates in the coupling between the peripheral SUR1 (sulfonylurea receptor 1) subunit and the central Kir6.2 channel, reveal the binding mode of activating nucleotides, and suggest the mechanism of how Mg-ADP binding on nucleotide binding domains (NBDs) drives a conformational change of the SUR1 subunit.

Keywords

KATP / SUR / ABC transporter / glibenclamide / sulfonylurea / diabetes

Cite this article

Download citation ▾
Jing-Xiang Wu, Dian Ding, Mengmeng Wang, Yunlu Kang, Xin Zeng, Lei Chen. Ligand binding and conformational changes of SUR1 subunit in pancreatic ATP-sensitive potassium channels. Protein Cell, 2018, 9(6): 553‒567 https://doi.org/10.1007/s13238-018-0530-y

References

[1]
Adams PD (2010) PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr D Biol Crystallogr 66:213–221
CrossRef Google scholar
[2]
Aguilar-Bryan L (1990) Photoaffinity labeling and partial purification of the beta cell sulfonylurea receptor using a novel, biologically active glyburide analog. J Biol Chem 265:8218–8224
[3]
Aguilar-Bryan L (1995) Cloning of the beta cell high-affinity sulfonylurea receptor: a regulator of insulin secretion. Science 268:423–426
CrossRef Google scholar
[4]
Aittoniemi J (2009) Review. SUR1: a unique ATP-binding cassette protein that functions as an ion channel regulator. Philos Trans R Soc Lond B Biol Sci 364:257–267
CrossRef Google scholar
[5]
Ashcroft FM (2017) Neonatal diabetes and the KATP channel: from mutation to therapy. Trends Endocrinol Metab 28:377–387
CrossRef Google scholar
[6]
Babenko AP, Bryan J (2002) SUR-dependent modulation of KATP channels by an N-terminal KIR6.2 peptide. Defining intersubunit gating interactions. J Biol Chem 277:43997–44004
CrossRef Google scholar
[7]
Babenko AP (1999) The N-terminus of KIR6.2 limits spontaneous bursting and modulates the ATP-inhibition of KATP channels. Biochem Biophys Res Commun 255:231–238
CrossRef Google scholar
[8]
Bai XC (2015) Sampling the conformational space of the catalytic subunit of human gamma-secretase. Elife. https://doi.org/10.7554/eLife.11182
CrossRef Google scholar
[9]
Baukrowitz T (1998) PIP2 and PIP as determinants for ATP inhibition of KATP channels. Science 282:1141–1144
CrossRef Google scholar
[10]
Bryan J (2005) Insulin secretagogues, sulfonylurea receptors and K(ATP) channels. Curr Pharm Des 11:2699–2716
CrossRef Google scholar
[11]
Carr RD (2003) NN414, a SUR1/Kir6.2-selective potassium channel opener, reduces blood glucose and improves glucose tolerance in the VDF Zucker rat. Diabetes 52:2513–2518
CrossRef Google scholar
[12]
Chen S (2013) High-resolution noise substitution to measure overfitting and validate resolution in 3D structure determination by single particle electron cryomicroscopy. Ultramicroscopy 135:24–35
CrossRef Google scholar
[13]
Choi KH (2008) Testing for violations of microscopic reversibility in ATP-sensitive potassium channel gating. J Phys Chem B 112:10314–10321
CrossRef Google scholar
[14]
Clement JPT (1997) Association and stoichiometry of K(ATP) channel subunits. Neuron 18:827–838
CrossRef Google scholar
[15]
Devaraneni PK (2015) Structurally distinct ligands rescue biogenesis defects of the KATP channel complex via a converging mechanism. J Biol Chem 290:7980–7991
CrossRef Google scholar
[16]
Emsley P (2010) Features and development of coot. Acta Crystallogr D Biol Crystallogr 66:486–501
CrossRef Google scholar
[17]
Flagg TP (2010) Muscle KATP channels: recent insights to energy sensing and myoprotection. Physiol Rev 90:799–829
CrossRef Google scholar
[18]
Goehring A (2014) Screening and large-scale expression of membrane proteins in mammalian cells for structural studies. Nat Protoc 9:2574–2585
CrossRef Google scholar
[19]
Gribble FM (1997) The interaction of nucleotides with the tolbutamide block of cloned ATP-sensitive K+channel currents expressed in Xenopus oocytes: a reinterpretation. J Physiol 504 (Pt 1):35–45
CrossRef Google scholar
[20]
Hibino H (2010) Inwardly rectifying potassium channels: their structure, function, and physiological roles. Physiol Rev 90:291–366
CrossRef Google scholar
[21]
Hilgemann DW, Ball R (1996) Regulation of cardiac Na+, Ca2+exchange and KATP potassium channels by PIP2. Science 273:956–959
CrossRef Google scholar
[22]
Hopkins WF (1992) Two sites for adenine-nucleotide regulation of ATP-sensitive potassium channels in mouse pancreatic betacells and HIT cells. J Membr Biol 129:287–295
CrossRef Google scholar
[23]
Jones PM, George AM (2017) How intrinsic dynamics mediates the allosteric mechanism in the ABC transporter nucleotide binding domain dimer. J Chem Theory Comput 13:1712–1722
CrossRef Google scholar
[24]
Karpowich N (2001) Crystal structures of the MJ1267 ATP binding cassette reveal an induced-fit effect at the ATPase active site of an ABC transporter. Structure 9:571–586
CrossRef Google scholar
[25]
Kawate T, Gouaux E (2006) Fluorescence-detection size-exclusion chromatography for precrystallization screening of integral membrane proteins. Structure 14:673–681
CrossRef Google scholar
[26]
Kimanius D (2016) Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2. Elife. https://doi.org/10.7554/eLife.18722
CrossRef Google scholar
[27]
Koster JC (1999) ATP inhibition of KATP channels: control of nucleotide sensitivity by the N-terminal domain of the Kir6.2 subunit. J Physiol 515(Pt 1):19–30
CrossRef Google scholar
[28]
Kuhner P (2012) Importance of the Kir6.2 N-terminus for the interaction of glibenclamide and repaglinide with the pancreatic K (ATP) channel. Naunyn Schmiedebergs Arch Pharmacol 385:299–311
CrossRef Google scholar
[29]
Lee KPK (2017) Molecular structure of human KATP in complex with ATP and ADP. Elife. https://doi.org/10.7554/eLife.32481
CrossRef Google scholar
[30]
Li N (2017) Structure of a pancreatic ATP-sensitive potassium channel. Cell 168:101–110
CrossRef Google scholar
[31]
Locher KP (2016) Mechanistic diversity in ATP-binding cassette (ABC) transporters. Nat Struct Mol Biol 23:487–493
CrossRef Google scholar
[32]
Martin GM (2017a) Anti-diabetic drug binding site in a mammalian KATP channel revealed by Cryo-EM. Elife. https://doi.org/10.7554/eLife.31054
CrossRef Google scholar
[33]
Martin GM (2017b) Cryo-EM structure of the ATP-sensitive potassium channel illuminates mechanisms of assembly and gating. Elife. https://doi.org/10.7554/eLife.24149
CrossRef Google scholar
[34]
Matsuo M (1999a) ATP binding properties of the nucleotidebinding folds of SUR1. J Biol Chem 274:37479–37482
CrossRef Google scholar
[35]
Matsuo M (1999b) NEM modification prevents high-affinity ATP binding to the first nucleotide binding fold of the sulphonylurea receptor, SUR1. FEBS Lett 458:292–294
CrossRef Google scholar
[36]
Nichols CG (1996) Adenosine diphosphate as an intracellular regulator of insulin secretion. Science 272:1785–1787
CrossRef Google scholar
[37]
Ortiz D (2013) Reinterpreting the action of ATP analogs on K (ATP) channels. J Biol Chem 288:18894–18902
CrossRef Google scholar
[38]
Pettersen EF (2004) UCSF Chimera—a visualization system for exploratory research and analysis. J Comput Chem 25:1605–1612
CrossRef Google scholar
[39]
Proks P (1999) Involvement of the N-terminus of Kir6.2 in the inhibition of the KATP channel by ATP. J Physiol 514(Pt 1):19–25
CrossRef Google scholar
[40]
Proks P (2010) Activation of the K(ATP) channel by Mgnucleotide interaction with SUR1. J Gen Physiol 136:389–405
CrossRef Google scholar
[41]
Punjani A (2017) cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination. Nat Methods 14:290–296
CrossRef Google scholar
[42]
Reimann F (1999) Involvement of the n-terminus of Kir6.2 in coupling to the sulphonylurea receptor. J Physiol 518(Pt 2):325–336
CrossRef Google scholar
[43]
Schwanstecher C (1994a) Interaction of tolbutamide and cytosolic nucleotides in controlling the ATP-sensitive K+ channel in mouse beta-cells. Br J Pharmacol 111:302–310
CrossRef Google scholar
[44]
Schwanstecher M (1994b) Identification of a 38-kDa high affinity sulfonylurea-binding peptide in insulin-secreting cells and cerebral cortex. J Biol Chem 269:17768–17771
[45]
Shimomura K (2006) Mutations at the same residue (R50) of Kir6.2 (KCNJ11) that cause neonatal diabetes produce different functional effects. Diabetes 55:1705–1712
CrossRef Google scholar
[46]
Shyng S, Nichols CG (1997) Octameric stoichiometry of the KATP channel complex. J Gen Physiol 110:655–664
CrossRef Google scholar
[47]
Shyng SL, Nichols CG (1998) Membrane phospholipid control of nucleotide sensitivity of KATP channels. Science 282:1138–1141
CrossRef Google scholar
[48]
Shyng S (1997) Regulation of KATP channel activity by diazoxide and MgADP. Distinct functions of the two nucleotide binding folds of the sulfonylurea receptor. J Gen Physiol 110:643–654
CrossRef Google scholar
[49]
Suloway C (2005) Automated molecular microscopy: the new Leginon system. J Struct Biol 151:41–60
CrossRef Google scholar
[50]
Ueda K (1997) MgADP antagonism to Mg2+-independent ATP binding of the sulfonylurea receptor SUR1. J Biol Chem 272:22983–22986
CrossRef Google scholar
[51]
Ueda K (1999) Cooperative binding of ATP and MgADP in the sulfonylurea receptor is modulated by glibenclamide. Proc Natl Acad Sci USA 96:1268–1272
CrossRef Google scholar
[52]
Vedovato N (2015) The nucleotide-binding sites of SUR1: a mechanistic model. Biophys J 109:2452–2460
CrossRef Google scholar
[53]
Vila-Carriles WH (2007) Defining a binding pocket for sulfonylureas in ATP-sensitive potassium channels. FASEB J 21:18–25
CrossRef Google scholar
[54]
Whorton MR, MacKinnon R (2011) Crystal structure of the mammalian GIRK2 K+ channel and gating regulation by G proteins, PIP2, and sodium. Cell 147:199–208
CrossRef Google scholar
[55]
Whorton MR, MacKinnon R (2013) X-ray structure of the mammalian GIRK2-betagamma G-protein complex. Nature 498:190–197
CrossRef Google scholar
[56]
Woo SK (2013) The sulfonylurea receptor 1 (Sur1)-transient receptor potential melastatin 4 (Trpm4) channel. J Biol Chem 288:3655–3667
CrossRef Google scholar
[57]
Zhang K (2016) Gctf: real-time CTF determination and correction. J Struct Biol 193:1–12
CrossRef Google scholar
[58]
Zhang Z, Chen J (2016) Atomic structure of the cystic fibrosis transmembrane conductance regulator. Cell 167(1586–1597):e1589
CrossRef Google scholar
[59]
Zhang Z (2017) Conformational changes of CFTR upon phosphorylation and ATP binding. Cell 170(483–491):e488
CrossRef Google scholar
[60]
Zhao Y (2015) In vitro inhibition of AKR1Cs by sulphonylureas and the structural basis. Chem Biol Interact 240:310–315
CrossRef Google scholar
[61]
Zheng SQ (2017) MotionCor2: anisotropic correction of beaminduced motion for improved cryo-electron microscopy. Nat Methods 14:331–332
CrossRef Google scholar
[62]
Zhou M (2015) Atomic structure of the apoptosome: mechanism of cytochrome c- and dATP-mediated activation of Apaf-1. Genes Dev 29:2349–2361
CrossRef Google scholar

RIGHTS & PERMISSIONS

2018 The Author(s) 2018
AI Summary AI Mindmap
PDF(3113 KB)

Accesses

Citations

Detail

Sections
Recommended

/