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- PDB-9jbs: Structure of LAT4 in the apo state -

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Basic information

Entry
Database: PDB / ID: 9jbs
TitleStructure of LAT4 in the apo state
ComponentsLarge neutral amino acids transporter small subunit 4
KeywordsMEMBRANE PROTEIN / LAT4 / SLC43A2 / amino acid transporter
Function / homology
Function and homology information


negative regulation of amino acid transport / negative regulation of L-leucine import across plasma membrane / L-phenylalanine transmembrane transporter activity / L-methionine transmembrane transporter activity / L-isoleucine transmembrane transporter activity / phenylalanine transport / methionine transport / L-leucine transmembrane transporter activity / isoleucine transport / L-amino acid transmembrane transporter activity ...negative regulation of amino acid transport / negative regulation of L-leucine import across plasma membrane / L-phenylalanine transmembrane transporter activity / L-methionine transmembrane transporter activity / L-isoleucine transmembrane transporter activity / phenylalanine transport / methionine transport / L-leucine transmembrane transporter activity / isoleucine transport / L-amino acid transmembrane transporter activity / L-leucine transport / neutral amino acid transport / neutral L-amino acid transmembrane transporter activity / Amino acid transport across the plasma membrane / amino acid transmembrane transporter activity / amino acid transport / basolateral plasma membrane / plasma membrane
Similarity search - Function
Major facilitator superfamily / Major Facilitator Superfamily / MFS transporter superfamily
Similarity search - Domain/homology
Large neutral amino acids transporter small subunit 4
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.88 Å
AuthorsYin, Y.X. / Ding, D. / Lu, Y.S. / Chen, H.Y.
Funding support China, 3items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)82030081 China
National Natural Science Foundation of China (NSFC)81874235 China
National Natural Science Foundation of China (NSFC)82173386 China
CitationJournal: To Be Published
Title: Structural insights into the amino acid transport and pharmacological blockade of human LAT4
Authors: Yin, Y.X. / Ding, D. / Lu, Y.S. / Chen, H.Y.
History
DepositionAug 27, 2024Deposition site: PDBJ / Processing site: PDBC
Revision 1.0Mar 11, 2026Provider: repository / Type: Initial release
Revision 1.0Mar 11, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release
Revision 1.0Mar 11, 2026Data content type: Half map / Part number: 1 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Mar 11, 2026Data content type: Half map / Part number: 2 / Data content type: Half map / Provider: repository / Type: Initial release
Revision 1.0Mar 11, 2026Data content type: Image / Data content type: Image / Provider: repository / Type: Initial release
Revision 1.0Mar 11, 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: Large neutral amino acids transporter small subunit 4


Theoretical massNumber of molelcules
Total (without water)62,7981
Polymers62,7981
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 Large neutral amino acids transporter small subunit 4 / L-type amino acid transporter 4 / Solute carrier family 43 member 2


Mass: 62797.562 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Gene: SLC43A2, LAT4, PP7664 / Production host: Homo sapiens (human) / References: UniProt: Q8N370
Has protein modificationY

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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: Large neutral amino acids transporter small subunit 4 / Type: COMPLEX / Entity ID: all / Source: RECOMBINANT
Molecular weightExperimental value: NO
Source (natural)Organism: Homo sapiens (human)
Source (recombinant)Organism: Homo sapiens (human)
Buffer solutionpH: 7.4
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
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 / Nominal defocus max: 2000 nm / Nominal defocus min: 1500 nm
Image recordingElectron dose: 56 e/Å2 / Film or detector model: GATAN K3 (6k x 4k)

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Processing

EM softwareName: cryoSPARC / Category: 3D reconstruction
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
SymmetryPoint symmetry: C1 (asymmetric)
3D reconstructionResolution: 2.88 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 935043 / Symmetry type: POINT

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