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- PDB-7en0: Structure and Activity of SLAC1 Channels for Stomatal Signaling i... -

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Basic information

Entry
Database: PDB / ID: 7en0
TitleStructure and Activity of SLAC1 Channels for Stomatal Signaling in Leaves
ComponentsSLow Anion Channel 1
KeywordsMEMBRANE PROTEIN / anion channel
Function / homology
Function and homology information


inorganic anion transport / response to humidity / stomatal closure / regulation of stomatal opening / voltage-gated monoatomic anion channel activity / regulation of stomatal closure / response to ozone / intracellular monoatomic ion homeostasis / response to carbon dioxide / response to abscisic acid ...inorganic anion transport / response to humidity / stomatal closure / regulation of stomatal opening / voltage-gated monoatomic anion channel activity / regulation of stomatal closure / response to ozone / intracellular monoatomic ion homeostasis / response to carbon dioxide / response to abscisic acid / multicellular organismal-level water homeostasis / organic anion transport / response to light stimulus / protein phosphatase binding / protein kinase binding / plasma membrane
Similarity search - Function
S-type anion channel / Transporter protein SLAC1/Mae1/ Ssu1/TehA / Voltage-dependent anion channel superfamily / Voltage-dependent anion channel
Similarity search - Domain/homology
DIUNDECYL PHOSPHATIDYL CHOLINE / SPHINGOSINE / Uncharacterized protein
Similarity search - Component
Biological speciesBrachypodium distachyon (stiff brome)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.97 Å
AuthorsDeng, Y. / Kashtoh, H. / Wang, Q. / Zhen, G. / Li, Q. / Tang, L. / Gao, H. / Zhang, C. / Qin, L. / Su, M. ...Deng, Y. / Kashtoh, H. / Wang, Q. / Zhen, G. / Li, Q. / Tang, L. / Gao, H. / Zhang, C. / Qin, L. / Su, M. / Li, F. / Huang, X. / Wang, Y. / Xie, Q. / Clarke, O.B. / Hendrickson, W.A. / Chen, Y.
Funding support China, United States, 5items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)31470728 China
National Natural Science Foundation of China (NSFC)31322005 China
National Natural Science Foundation of China (NSFC)31872721 China
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01GM107462 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)P41GM116799 United States
CitationJournal: 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
DepositionApr 15, 2021Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0May 19, 2021Provider: repository / Type: Initial release
Revision 1.1Jun 5, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession

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Assembly

Deposited unit
A: SLow Anion Channel 1
B: SLow Anion Channel 1
C: SLow Anion Channel 1
hetero molecules


Theoretical massNumber of molelcules
Total (without water)190,8029
Polymers188,0353
Non-polymers2,7676
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: Protein SLow Anion Channel 1 / SLAC1


Mass: 62678.348 Da / Num. of mol.: 3
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Brachypodium distachyon (stiff brome) / Gene: 100841201, BRADI_5g18980v3 / Production host: Schizosaccharomyces pombe (fission yeast) / References: UniProt: A0A0Q3IDG7
#2: Chemical ChemComp-PLC / DIUNDECYL PHOSPHATIDYL CHOLINE


Mass: 622.834 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: C32H65NO8P / Comment: phospholipid*YM
#3: Chemical ChemComp-SPH / SPHINGOSINE


Mass: 299.492 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: C18H37NO2
Has ligand of interestN

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: Cryo-EM structure of Brachypodium distachyon SLAC1 / Type: COMPLEX / Entity ID: #1 / Source: RECOMBINANT
Source (natural)Organism: Brachypodium distachyon (stiff brome)
Source (recombinant)Organism: Schizosaccharomyces pombe (fission yeast)
Buffer solutionpH: 8
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
Specimen supportGrid material: GOLD / Grid mesh size: 300 divisions/in. / Grid type: UltrAuFoil R0.6/1
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD
Image recordingElectron dose: 71.3 e/Å2 / Detector mode: COUNTING / Film or detector model: GATAN K2 SUMMIT (4k x 4k)

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Processing

EM softwareName: cryoSPARC / Version: 2.0.27 / Category: 3D reconstruction
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
SymmetryPoint symmetry: C3 (3 fold cyclic)
3D reconstructionResolution: 2.97 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 95704 / Symmetry type: POINT

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