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- EMDB-6475: Cryo-EM structure of the rabbit voltage-gated calcium channel Cav... -
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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-6475 | |||||||||
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Title | Cryo-EM structure of the rabbit voltage-gated calcium channel Cav1.1 at 4.2 angstrom resolution | |||||||||
![]() | Reconstruction of a membrane protein | |||||||||
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Function / homology | ![]() voltage-gated calcium channel activity involved in regulation of presynaptic cytosolic calcium levels / Phase 2 - plateau phase / Phase 0 - rapid depolarisation / Presynaptic depolarization and calcium channel opening / voltage-gated calcium channel activity involved in AV node cell action potential / Regulation of insulin secretion / positive regulation of calcium ion transmembrane transport via high voltage-gated calcium channel / positive regulation of muscle contraction / positive regulation of high voltage-gated calcium channel activity / membrane depolarization during atrial cardiac muscle cell action potential ...voltage-gated calcium channel activity involved in regulation of presynaptic cytosolic calcium levels / Phase 2 - plateau phase / Phase 0 - rapid depolarisation / Presynaptic depolarization and calcium channel opening / voltage-gated calcium channel activity involved in AV node cell action potential / Regulation of insulin secretion / positive regulation of calcium ion transmembrane transport via high voltage-gated calcium channel / positive regulation of muscle contraction / positive regulation of high voltage-gated calcium channel activity / membrane depolarization during atrial cardiac muscle cell action potential / membrane depolarization during AV node cell action potential / regulation of presynaptic cytosolic calcium ion concentration / high voltage-gated calcium channel activity / L-type voltage-gated calcium channel complex / photoreceptor ribbon synapse / positive regulation of calcium ion transport / calcium ion import / regulation of calcium ion transmembrane transport via high voltage-gated calcium channel / voltage-gated calcium channel complex / neuromuscular junction development / cellular response to caffeine / regulation of heart rate by cardiac conduction / calcium channel regulator activity / calcium ion import across plasma membrane / voltage-gated calcium channel activity / release of sequestered calcium ion into cytosol / regulation of ryanodine-sensitive calcium-release channel activity / T-tubule / visual perception / muscle contraction / protein localization to plasma membrane / calcium ion transmembrane transport / phosphoprotein binding / sarcolemma / calcium ion transport / actin filament binding / presynapse / chemical synaptic transmission / transmembrane transporter binding / calmodulin binding / protein domain specific binding / protein kinase binding / identical protein binding / metal ion binding / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.2 Å | |||||||||
![]() | Wu JP / Yan Z / Li ZQ / Yan N | |||||||||
![]() | ![]() Title: Structure of the voltage-gated calcium channel Cav1.1 complex. Authors: Jianping Wu / Zhen Yan / Zhangqiang Li / Chuangye Yan / Shan Lu / Mengqiu Dong / Nieng Yan / ![]() Abstract: The voltage-gated calcium channel Ca(v)1.1 is engaged in the excitation-contraction coupling of skeletal muscles. The Ca(v)1.1 complex consists of the pore-forming subunit α1 and auxiliary subunits ...The voltage-gated calcium channel Ca(v)1.1 is engaged in the excitation-contraction coupling of skeletal muscles. The Ca(v)1.1 complex consists of the pore-forming subunit α1 and auxiliary subunits α2δ, β, and γ. We report the structure of the rabbit Ca(v)1.1 complex determined by single-particle cryo-electron microscopy. The four homologous repeats of the α1 subunit are arranged clockwise in the extracellular view. The γ subunit, whose structure resembles claudins, interacts with the voltage-sensing domain of repeat IV (VSD(IV)), whereas the cytosolic β subunit is located adjacent to VSD(II) of α1. The α2 subunit interacts with the extracellular loops of repeats I to III through its VWA and Cache1 domains. The structure reveals the architecture of a prototypical eukaryotic Ca(v) channel and provides a framework for understanding the function and disease mechanisms of Ca(v) and Na(v) channels. | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 59.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 12.2 KB 12.2 KB | Display Display | ![]() |
Images | ![]() ![]() | 49.8 KB 3.4 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 356.7 KB | Display | ![]() |
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Full document | ![]() | 356.3 KB | Display | |
Data in XML | ![]() | 5.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3jbrMC ![]() 6476C M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | Reconstruction of a membrane protein | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.32 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
-Entire : a membrane protein cryo-sample
Entire | Name: a membrane protein cryo-sample |
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Components |
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-Supramolecule #1000: a membrane protein cryo-sample
Supramolecule | Name: a membrane protein cryo-sample / type: sample / ID: 1000 / Details: The sample was monodisperse / Number unique components: 4 |
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Molecular weight | Theoretical: 450 KDa |
-Macromolecule #1: Voltage-dependent L-type calcium channel subunit alpha-1S
Macromolecule | Name: Voltage-dependent L-type calcium channel subunit alpha-1S type: protein_or_peptide / ID: 1 / Number of copies: 1 / Oligomeric state: monomer / Recombinant expression: No / Database: NCBI |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 210 KDa |
Sequence | UniProtKB: Voltage-dependent L-type calcium channel subunit alpha-1S |
-Macromolecule #2: Voltage-dependent L-type calcium channel subunit beta-2
Macromolecule | Name: Voltage-dependent L-type calcium channel subunit beta-2 type: protein_or_peptide / ID: 2 / Number of copies: 1 / Oligomeric state: monomer / Recombinant expression: No / Database: NCBI |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 30 KDa |
Sequence | UniProtKB: Voltage-dependent L-type calcium channel subunit beta-2 |
-Macromolecule #3: Voltage-dependent calcium channel gamma-1 subunit
Macromolecule | Name: Voltage-dependent calcium channel gamma-1 subunit / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Oligomeric state: monomer / Recombinant expression: No / Database: NCBI |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 25 KDa |
Sequence | UniProtKB: Voltage-dependent calcium channel gamma-1 subunit |
-Macromolecule #4: Voltage-dependent calcium channel subunit alpha-2/delta-1
Macromolecule | Name: Voltage-dependent calcium channel subunit alpha-2/delta-1 type: protein_or_peptide / ID: 4 / Number of copies: 1 / Oligomeric state: monomer / Recombinant expression: No / Database: NCBI |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 125 KDa |
Sequence | UniProtKB: Voltage-dependent calcium channel subunit alpha-2/delta-1 |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 0.1 mg/mL |
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Buffer | pH: 7.4 / Details: 200mM NaCl, 20mM MOPS, 0.5mM CaCl2, 0.1% digitonin |
Grid | Details: carbon coated grid |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Instrument: FEI VITROBOT MARK IV / Method: Blot for 2 seconds before plunging |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Date | Feb 2, 2015 |
Image recording | Category: CCD / Film or detector model: GATAN K2 (4k x 4k) / Number real images: 3991 / Average electron dose: 50 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 0.0033 µm / Nominal defocus min: 0.002 µm |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Details | The particles were selected using RELION. |
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CTF correction | Details: each micrograph |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 4.2 Å / Resolution method: OTHER / Software - Name: RELION / Number images used: 353372 |