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Yorodumi- EMDB-22983: Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-22983 | |||||||||
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Title | Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and PNU-120596 in the activated state | |||||||||
Map data | Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and PNU-120596 in the activated state | |||||||||
Sample |
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Function / homology | Function and homology information sensory processing / dendrite arborization / acetylcholine receptor activity / response to acetylcholine / Highly calcium permeable postsynaptic nicotinic acetylcholine receptors / regulation of amyloid fibril formation / acetylcholine-gated channel complex / positive regulation of CoA-transferase activity / short-term memory / regulation of amyloid precursor protein catabolic process ...sensory processing / dendrite arborization / acetylcholine receptor activity / response to acetylcholine / Highly calcium permeable postsynaptic nicotinic acetylcholine receptors / regulation of amyloid fibril formation / acetylcholine-gated channel complex / positive regulation of CoA-transferase activity / short-term memory / regulation of amyloid precursor protein catabolic process / acetylcholine-gated monoatomic cation-selective channel activity / synaptic transmission, cholinergic / chloride channel regulator activity / dendritic spine organization / acetylcholine binding / acetylcholine receptor signaling pathway / positive regulation of amyloid-beta formation / negative regulation of amyloid-beta formation / modulation of excitatory postsynaptic potential / plasma membrane raft / positive regulation of excitatory postsynaptic potential / response to amyloid-beta / negative regulation of tumor necrosis factor production / toxic substance binding / monoatomic ion transport / positive regulation of protein metabolic process / monoatomic ion transmembrane transport / response to nicotine / positive regulation of long-term synaptic potentiation / synapse organization / calcium channel activity / intracellular calcium ion homeostasis / memory / cognition / positive regulation of angiogenesis / calcium ion transport / monoatomic ion channel activity / amyloid-beta binding / postsynaptic membrane / postsynapse / positive regulation of MAPK cascade / electron transfer activity / periplasmic space / positive regulation of ERK1 and ERK2 cascade / response to hypoxia / learning or memory / neuron projection / positive regulation of protein phosphorylation / iron ion binding / synapse / positive regulation of cell population proliferation / heme binding / signal transduction / protein homodimerization activity / membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.7 Å | |||||||||
Authors | Noviello CM / Hibbs RE / Gharpure A / Mukhtasimova N / Baxter L / Cabuco R / Borek D / Sine S | |||||||||
Funding support | United States, 2 items
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Citation | Journal: Cell / Year: 2021 Title: Structure and gating mechanism of the α7 nicotinic acetylcholine receptor. Authors: Colleen M Noviello / Anant Gharpure / Nuriya Mukhtasimova / Rico Cabuco / Leah Baxter / Dominika Borek / Steven M Sine / Ryan E Hibbs / Abstract: The α7 nicotinic acetylcholine receptor plays critical roles in the central nervous system and in the cholinergic inflammatory pathway. This ligand-gated ion channel assembles as a homopentamer, is ...The α7 nicotinic acetylcholine receptor plays critical roles in the central nervous system and in the cholinergic inflammatory pathway. This ligand-gated ion channel assembles as a homopentamer, is exceptionally permeable to Ca, and desensitizes faster than any other Cys-loop receptor. The α7 receptor has served as a prototype for the Cys-loop superfamily yet has proven refractory to structural analysis. We present cryo-EM structures of the human α7 nicotinic receptor in a lipidic environment in resting, activated, and desensitized states, illuminating the principal steps in the gating cycle. The structures also reveal elements that contribute to its function, including a C-terminal latch that is permissive for channel opening, and an anionic ring in the extracellular vestibule that contributes to its high conductance and calcium permeability. Comparisons among the α7 structures provide a foundation for mapping the gating cycle and reveal divergence in gating mechanisms in the Cys-loop receptor superfamily. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_22983.map.gz | 10 MB | EMDB map data format | |
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Header (meta data) | emd-22983-v30.xml emd-22983.xml | 18 KB 18 KB | Display Display | EMDB header |
Images | emd_22983.png | 160.9 KB | ||
Others | emd_22983_additional_1.map.gz emd_22983_half_map_1.map.gz emd_22983_half_map_2.map.gz | 138.9 MB 140.2 MB 140.3 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-22983 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-22983 | HTTPS FTP |
-Related structure data
Related structure data | 7koxMC 7kooC 7koqC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_22983.map.gz / Format: CCP4 / Size: 178 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and PNU-120596 in the activated state | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.83 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Additional map: Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and...
File | emd_22983_additional_1.map | ||||||||||||
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Annotation | Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and PNU-120596 in the activated state | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and...
File | emd_22983_half_map_1.map | ||||||||||||
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Annotation | Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and PNU-120596 in the activated state | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and...
File | emd_22983_half_map_2.map | ||||||||||||
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Annotation | Alpha-7 nicotinic acetylcholine receptor bound to epibatidine and PNU-120596 in the activated state | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : alpha-7 nicotinic receptor in complex with epibatidine and PNU-120596
Entire | Name: alpha-7 nicotinic receptor in complex with epibatidine and PNU-120596 |
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Components |
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-Supramolecule #1: alpha-7 nicotinic receptor in complex with epibatidine and PNU-120596
Supramolecule | Name: alpha-7 nicotinic receptor in complex with epibatidine and PNU-120596 type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Homo sapiens (human) |
Recombinant expression | Organism: Homo sapiens (human) |
-Macromolecule #1: Neuronal acetylcholine receptor subunit alpha-7,Soluble cytochrom...
Macromolecule | Name: Neuronal acetylcholine receptor subunit alpha-7,Soluble cytochrome b562 fusion type: protein_or_peptide / ID: 1 / Number of copies: 5 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 63.832293 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: EFQRKLYKEL VKNYNPLERP VANDSQPLTV YFSLSLLQIM DVDEKNQVLT TNIWLQMSWT DHYLQWNVSE YPGVKTVRFP DGQIWKPDI LLYNSADERF DATFHTNVLV NSSGHCQYLP PGIFKSSCYI DVRWFPFDVQ HCKLKFGSWS YGGWSLDLQM Q EADISGYI ...String: EFQRKLYKEL VKNYNPLERP VANDSQPLTV YFSLSLLQIM DVDEKNQVLT TNIWLQMSWT DHYLQWNVSE YPGVKTVRFP DGQIWKPDI LLYNSADERF DATFHTNVLV NSSGHCQYLP PGIFKSSCYI DVRWFPFDVQ HCKLKFGSWS YGGWSLDLQM Q EADISGYI PNGEWDLVGI PGKRSERFYE CCKEPYPDVT FTVTMRRRTL YYGLNLLIPC VLISALALLV FLLPADSGEK IS LGITVLL SLTVFMLLVA EIMPATSDSV PLIAQYFAST MIIVGLSVVV TVIVLQYHHH DPDGGKMPKW TRVILLNWCA WFL RMKRPG EDKVRPACQH KQRRCSLASV EMAGAMADLE DNWETLNDNL KVIEKADNAA QVKDALTKMR AAALDAQKAT PPKL EDKSP DSPEMKDFRH GFDILVGQID DALKLANEGK VKEAQAAAEQ LKTTRNAYIQ KYLCGRMACS PTHDEHLLHG GQPPE GDPD LAKILEEVRY IANRFRCQDE SEAVCSEWKF AACVVDRLCL MAFSVFTIIC TIGILMSAPN FVEAVSKDFA WSHPQF EK |
-Macromolecule #3: 2-acetamido-2-deoxy-beta-D-glucopyranose
Macromolecule | Name: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 3 / Number of copies: 10 / Formula: NAG |
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Molecular weight | Theoretical: 221.208 Da |
Chemical component information | ChemComp-NAG: |
-Macromolecule #4: EPIBATIDINE
Macromolecule | Name: EPIBATIDINE / type: ligand / ID: 4 / Number of copies: 5 / Formula: EPJ |
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Molecular weight | Theoretical: 208.687 Da |
Chemical component information | ChemComp-EPJ: |
-Macromolecule #5: CALCIUM ION
Macromolecule | Name: CALCIUM ION / type: ligand / ID: 5 / Number of copies: 5 / Formula: CA |
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Molecular weight | Theoretical: 40.078 Da |
-Macromolecule #6: water
Macromolecule | Name: water / type: ligand / ID: 6 / Number of copies: 5 / Formula: HOH |
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Molecular weight | Theoretical: 18.015 Da |
Chemical component information | ChemComp-HOH: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.4 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 45.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Initial angle assignment | Type: RANDOM ASSIGNMENT |
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Final angle assignment | Type: MAXIMUM LIKELIHOOD |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 2004527 |