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Yorodumi- EMDB-31197: Structure and Activity of SLAC1 Channels for Stomatal Signaling i... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-31197 | ||||||||||||||||||
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Title | Structure and Activity of SLAC1 Channels for Stomatal Signaling in Leaves | ||||||||||||||||||
Map data | Map used for building. Post-processed from half maps using phenix.auto_sharpen. | ||||||||||||||||||
Sample |
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Function / homology | Function and homology information response to humidity / regulation of stomatal opening / stomatal closure / voltage-gated monoatomic anion channel activity / regulation of stomatal closure / response to ozone / intracellular monoatomic ion homeostasis / response to carbon dioxide / organic anion transport / response to abscisic acid ...response to humidity / regulation of stomatal opening / stomatal closure / voltage-gated monoatomic anion channel activity / regulation of stomatal closure / response to ozone / intracellular monoatomic ion homeostasis / response to carbon dioxide / organic anion transport / response to abscisic acid / multicellular organismal-level water homeostasis / response to light stimulus / protein phosphatase binding / membrane => GO:0016020 / protein kinase binding / plasma membrane Similarity search - Function | ||||||||||||||||||
Biological species | Brachypodium distachyon (stiff brome) | ||||||||||||||||||
Method | single particle reconstruction / cryo EM / negative staining / Resolution: 2.97 Å | ||||||||||||||||||
Authors | Deng Y / Kashtoh H / Wang Q / Zhen GX / Li QY / Tang L / Gao HL / Zhang CR / Qin L / Su M ...Deng Y / Kashtoh H / Wang Q / Zhen GX / Li QY / Tang L / Gao HL / Zhang CR / Qin L / Su M / Li F / Huang XH / Wang YC / Xie Q / Clarke OB / Hendrickson WA / Chen YH | ||||||||||||||||||
Funding support | China, United States, 5 items
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Citation | Journal: Proc Natl Acad Sci U S A / Year: 2021 Title: Structure and activity of SLAC1 channels for stomatal signaling in leaves. Authors: Ya-Nan Deng / Hamdy Kashtoh / Quan Wang / Guang-Xiao Zhen / Qi-Yu Li / Ling-Hui Tang / Hai-Long Gao / Chun-Rui Zhang / Li Qin / Min Su / Fei Li / Xia-He Huang / Ying-Chun Wang / Qi Xie / ...Authors: Ya-Nan Deng / Hamdy Kashtoh / Quan Wang / Guang-Xiao Zhen / Qi-Yu Li / Ling-Hui Tang / Hai-Long Gao / Chun-Rui Zhang / Li Qin / Min Su / Fei Li / Xia-He Huang / Ying-Chun Wang / Qi Xie / Oliver B Clarke / Wayne A Hendrickson / Yu-Hang Chen / Abstract: Stomata in leaves regulate gas exchange between the plant and its atmosphere. Various environmental stimuli elicit abscisic acid (ABA); ABA leads to phosphoactivation of slow anion channel 1 (SLAC1); ...Stomata in leaves regulate gas exchange between the plant and its atmosphere. Various environmental stimuli elicit abscisic acid (ABA); ABA leads to phosphoactivation of slow anion channel 1 (SLAC1); SLAC1 activity reduces turgor pressure in aperture-defining guard cells; and stomatal closure ensues. We used electrophysiology for functional characterizations of SLAC1 (SLAC1) and cryoelectron microscopy (cryo-EM) for structural analysis of SLAC1 (SLAC1), at 2.97-Å resolution. We identified 14 phosphorylation sites in SLAC1 and showed nearly 330-fold channel-activity enhancement with 4 to 6 of these phosphorylated. Seven SLAC1-conserved arginines are poised in SLAC1 for regulatory interaction with the N-terminal extension. This SLAC1 structure has its pores closed, in a basal state, spring loaded by phenylalanyl residues in high-energy conformations. SLAC1 phosphorylation fine-tunes an equilibrium between basal and activated SLAC1 trimers, thereby controlling the degree of stomatal opening. | ||||||||||||||||||
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_31197.map.gz | 27.6 MB | EMDB map data format | |
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Header (meta data) | emd-31197-v30.xml emd-31197.xml | 15.5 KB 15.5 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_31197_fsc.xml | 7 KB | Display | FSC data file |
Images | emd_31197.png | 56.4 KB | ||
Masks | emd_31197_msk_1.map | 30.5 MB | Mask map | |
Others | emd_31197_half_map_1.map.gz emd_31197_half_map_2.map.gz | 28.4 MB 28.4 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-31197 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-31197 | HTTPS FTP |
-Validation report
Summary document | emd_31197_validation.pdf.gz | 550.4 KB | Display | EMDB validaton report |
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Full document | emd_31197_full_validation.pdf.gz | 549.9 KB | Display | |
Data in XML | emd_31197_validation.xml.gz | 13.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-31197 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-31197 | HTTPS FTP |
-Related structure data
Related structure data | 7en0MC 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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-Map
File | Download / File: emd_31197.map.gz / Format: CCP4 / Size: 30.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Map used for building. Post-processed from half maps using phenix.auto_sharpen. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.0475 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Mask #1
File | emd_31197_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: Half map B
File | emd_31197_half_map_1.map | ||||||||||||
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Annotation | Half map B | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map A
File | emd_31197_half_map_2.map | ||||||||||||
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Annotation | Half map A | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Cryo-EM structure of Brachypodium distachyon SLAC1
Entire | Name: Cryo-EM structure of Brachypodium distachyon SLAC1 |
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Components |
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-Supramolecule #1: Cryo-EM structure of Brachypodium distachyon SLAC1
Supramolecule | Name: Cryo-EM structure of Brachypodium distachyon SLAC1 / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Brachypodium distachyon (stiff brome) |
Recombinant expression | Organism: Schizosaccharomyces pombe (fission yeast) |
-Experimental details
-Structure determination
Method | negative staining, cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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Staining | Type: NEGATIVE / Material: Uranyl Acetate |
Grid | Model: UltrAuFoil R0.6/1 / Material: GOLD / Mesh: 300 |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 71.3 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |