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- PDB-9m7u: At S1+tRNA trimer -

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Basic information

Entry
Database: PDB / ID: 9m7u
TitleAt S1+tRNA trimer
Components
  • RNA (75-MER)
  • S-type anion channel SLAH1
KeywordsMEMBRANE PROTEIN/RNA / At S1+tRNA trimer / MEMBRANE PROTEIN-RNA complex
Function / homology
Function and homology information


voltage-gated monoatomic anion channel activity / intracellular monoatomic ion homeostasis / response to water deprivation / chloride transport / response to salt stress / 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
RNA / RNA (> 10) / S-type anion channel SLAH1
Similarity search - Component
Biological speciesArabidopsis thaliana (thale cress)
Homo sapiens (human)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.18 Å
AuthorsZhang, S.S.
Funding support China, 1items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32030056 China
Citation
Journal: Nat Commun / Year: 2025
Title: Structural insights into the coordinated regulation of the SLAH family in Arabidopsis thaliana.
Authors: Sensen Zhang / Xueying Huang / Xiaojuan Wang / Boya Qi / Kaiwen Yang / Chang Liu / Ruochong Li / Xudong Chen / Jingbo Yi / Jian Yin / Maofei Chen / Botong Liu / Jiayi Fan / Tao Liu / Zhilin ...Authors: Sensen Zhang / Xueying Huang / Xiaojuan Wang / Boya Qi / Kaiwen Yang / Chang Liu / Ruochong Li / Xudong Chen / Jingbo Yi / Jian Yin / Maofei Chen / Botong Liu / Jiayi Fan / Tao Liu / Zhilin Hao / Kun Cui / Ni Xiao / Yingcai Song / Yujie Li / Di Wu / Tiancong Qi / Jian Mao / Bing Zhang / Maojun Yang / Jianping Xie / Zhiqiang Liu /
Abstract: S-type anion channel homologs (SLAH) are widely expressed in various plant tissues and play a key role in anion transport, which is crucial for plant adaptation to both biotic and abiotic stresses. ...S-type anion channel homologs (SLAH) are widely expressed in various plant tissues and play a key role in anion transport, which is crucial for plant adaptation to both biotic and abiotic stresses. In this study, we employ cryo-electron microscopy (cryo-EM) to analyze four SLAH channel complexes from Arabidopsis thaliana: the homotrimeric SLAH3 channel, the 2SLAH1 + SLAH3+tRNA complex, the 1SLAH1 + 2SLAH3 complex, and the 3SLAH1+tRNA complex. Critically, our studies reveal that tRNA directly binds to and occupies the intracellular entrance of the SLAH1 homotrimer and the 2SLAH1 + SLAH3 heterocomplex. Electrophysiological experiments confirm tRNA's role as a potent inhibitory regulatory subunit: RNase-mediated tRNA degradation robustly activates SLAH1 currents, while targeted mutagenesis of SLAH1 tRNA-interacting residues phenocopy this activation and enhanced ABA-induced stomatal closure. Combining with structural biology, electrophysiology, and biochemistry, we comprehensively examine the key residues in SLAH1 and SLAH3 that are responsible for the anion permeation. This mechanistic advancement provides a deeper understanding of the molecular basis for plant stress tolerance and identifies specific molecular targets for future engineering crops.
#1: Journal: Nat Commun / Year: 2025
Title: Structural insights into the coordinated regulation of the SLAH family in Arabidopsis thaliana.
Authors: Sensen Zhang / Xueying Huang / Xiaojuan Wang / Boya Qi / Kaiwen Yang / Chang Liu / Ruochong Li / Xudong Chen / Jingbo Yi / Jian Yin / Maofei Chen / Botong Liu / Jiayi Fan / Tao Liu / Zhilin ...Authors: Sensen Zhang / Xueying Huang / Xiaojuan Wang / Boya Qi / Kaiwen Yang / Chang Liu / Ruochong Li / Xudong Chen / Jingbo Yi / Jian Yin / Maofei Chen / Botong Liu / Jiayi Fan / Tao Liu / Zhilin Hao / Kun Cui / Ni Xiao / Yingcai Song / Yujie Li / Di Wu / Tiancong Qi / Jian Mao / Bing Zhang / Maojun Yang / Jianping Xie / Zhiqiang Liu /
Abstract: S-type anion channel homologs (SLAH) are widely expressed in various plant tissues and play a key role in anion transport, which is crucial for plant adaptation to both biotic and abiotic stresses. ...S-type anion channel homologs (SLAH) are widely expressed in various plant tissues and play a key role in anion transport, which is crucial for plant adaptation to both biotic and abiotic stresses. In this study, we employ cryo-electron microscopy (cryo-EM) to analyze four SLAH channel complexes from Arabidopsis thaliana: the homotrimeric SLAH3 channel, the 2SLAH1 + SLAH3+tRNA complex, the 1SLAH1 + 2SLAH3 complex, and the 3SLAH1+tRNA complex. Critically, our studies reveal that tRNA directly binds to and occupies the intracellular entrance of the SLAH1 homotrimer and the 2SLAH1 + SLAH3 heterocomplex. Electrophysiological experiments confirm tRNA's role as a potent inhibitory regulatory subunit: RNase-mediated tRNA degradation robustly activates SLAH1 currents, while targeted mutagenesis of SLAH1 tRNA-interacting residues phenocopy this activation and enhanced ABA-induced stomatal closure. Combining with structural biology, electrophysiology, and biochemistry, we comprehensively examine the key residues in SLAH1 and SLAH3 that are responsible for the anion permeation. This mechanistic advancement provides a deeper understanding of the molecular basis for plant stress tolerance and identifies specific molecular targets for future engineering crops.
History
DepositionMar 11, 2025Deposition site: PDBJ / Processing site: PDBC
Revision 1.0Mar 18, 2026Provider: repository / Type: Initial release
Revision 1.0Mar 18, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release
Revision 1.0Mar 18, 2026Data content type: Half map / Part number: 1 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Mar 18, 2026Data content type: Half map / Part number: 2 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Mar 18, 2026Data content type: Image / Data content type: Image / Provider: repository / Type: Initial release
Revision 1.0Mar 18, 2026Data content type: Primary map / Data content type: Primary map / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: S-type anion channel SLAH1
G: RNA (75-MER)
B: S-type anion channel SLAH1
C: S-type anion channel SLAH1


Theoretical massNumber of molelcules
Total (without water)154,4444
Polymers154,4444
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: Protein S-type anion channel SLAH1 / SLAC1-homolog protein 1


Mass: 43445.320 Da / Num. of mol.: 3
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Arabidopsis thaliana (thale cress) / Gene: SLAH1, At1g62280, F19K23.20 / Production host: Homo sapiens (human) / References: UniProt: Q5E930
#2: RNA chain RNA (75-MER)


Mass: 24108.287 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Homo sapiens (human)
Has protein modificationN

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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: At S1+2S3 trimer / Type: ORGANELLE OR CELLULAR COMPONENT / Entity ID: all / Source: RECOMBINANT
Source (natural)
IDEntity assembly-IDOrganismNcbi tax-ID
21Arabidopsis thaliana (thale cress)3702
31Homo sapiens (human)9606
Source (recombinant)Organism: Homo sapiens (human)
Buffer solutionpH: 7.2
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE-PROPANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: TFS KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 2500 nm / Nominal defocus min: 1200 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k)

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Processing

EM software
IDNameCategory
1cryoSPARCparticle selection
13cryoSPARC3D reconstruction
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 3.18 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 159000 / Symmetry type: POINT

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