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- EMDB-25666: Rat vesicular glutamate transporter 2 (VGLUT2) in low Cl condition -
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Open data
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Basic information
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Title | Rat vesicular glutamate transporter 2 (VGLUT2) in low Cl condition | |||||||||
![]() | sharpened map for model building | |||||||||
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![]() | synaptic vesicle / neurotransmitter / glutamate transport / TRANSPORT PROTEIN | |||||||||
Function / homology | ![]() sodium:phosphate symporter activity / sodium-dependent phosphate transport / phosphate ion uniporter activity / L-glutamate uniporter activity / pericellular basket / Organic anion transporters / neurotransmitter uptake / neurotransmitter loading into synaptic vesicle / hyaloid vascular plexus regression / L-glutamate import ...sodium:phosphate symporter activity / sodium-dependent phosphate transport / phosphate ion uniporter activity / L-glutamate uniporter activity / pericellular basket / Organic anion transporters / neurotransmitter uptake / neurotransmitter loading into synaptic vesicle / hyaloid vascular plexus regression / L-glutamate import / phosphate ion transport / L-glutamate transmembrane transport / L-glutamate transmembrane transporter activity / potassium:proton antiporter activity / neurotransmitter transmembrane transporter activity / phosphate ion homeostasis / neural retina development / regulation of synapse structure or activity / monoatomic anion transport / chloride channel activity / chloride channel complex / excitatory synapse / synaptic transmission, glutamatergic / hippocampus development / synaptic vesicle membrane / synaptic vesicle / presynapse / early endosome / neuron projection / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.3 Å | |||||||||
![]() | Li F / Stroud RM | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Substrate Recognition, Directional Flux, and Allostery in a Synaptic Vesicle Glutamate Transporter Authors: Li F / Stroud RM | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 227.2 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 10.5 KB 10.5 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 14.2 KB | Display | ![]() |
Images | ![]() | 83.7 KB | ||
Filedesc metadata | ![]() | 5.6 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 534.3 KB | Display | ![]() |
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Full document | ![]() | 533.9 KB | Display | |
Data in XML | ![]() | 14.4 KB | Display | |
Data in CIF | ![]() | 19.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7t3oMC ![]() 7t3nC C: citing same article ( M: atomic model generated by this map |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | sharpened map for model building | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.86 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
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Sample components
-Entire : complex of WT VGLUT2 with a Fab
Entire | Name: complex of WT VGLUT2 with a Fab |
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Components |
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-Supramolecule #1: complex of WT VGLUT2 with a Fab
Supramolecule | Name: complex of WT VGLUT2 with a Fab / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() ![]() |
-Macromolecule #1: Vesicular glutamate transporter 2
Macromolecule | Name: Vesicular glutamate transporter 2 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 64.63727 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MESVKQRILA PGKEGIKNFA GKSLGQIYRV LEKKQDNRET IELTEDGKPL EVPEKKAPLC DCTCFGLPRR YIIAIMSGLG FCISFGIRC NLGVAIVDMV NNSTIHRGGK VIKEKAKFNW DPETVGMIHG SFFWGYIITQ IPGGYIASRL AANRVFGAAI L LTSTLNML ...String: MESVKQRILA PGKEGIKNFA GKSLGQIYRV LEKKQDNRET IELTEDGKPL EVPEKKAPLC DCTCFGLPRR YIIAIMSGLG FCISFGIRC NLGVAIVDMV NNSTIHRGGK VIKEKAKFNW DPETVGMIHG SFFWGYIITQ IPGGYIASRL AANRVFGAAI L LTSTLNML IPSAARVHYG CVIFVRILQG LVEGVTYPAC HGIWSKWAPP LERSRLATTS FCGSYAGAVI AMPLAGILVQ YT GWSSVFY VYGSFGMVWY MFWLLVSYES PAKHPTITDE ERRYIEESIG ESANLLGAME KFKTPWRKFF TSMPVYAIIV ANF CRSWTF YLLLISQPAY FEEVFGFEIS KVGMLSAVPH LVMTIIVPIG GQIADFLRSK QILSTTTVRK IMNCGGFGME ATLL LVVGY SHTRGVAISF LVLAVGFSGF AISGFNVNHL DIAPRYASIL MGISNGVGTL SGMVCPIIVG AMTKNKSREE WQYVF LIAA LVHYGGVIFY ALFASGEKQP WADPEETSEE KCGFIHEDEL DEETGDITQN YINYGTTKSY GATSQENGGW PNGWEK KEE FVQESAQDAY SYKDRDDYS UniProtKB: Vesicular glutamate transporter 2 |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 0.5 mg/mL |
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Buffer | pH: 7.4 |
Grid | Model: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 400 / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 283 K |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: DARK FIELD / Nominal defocus max: 20.0 µm / Nominal defocus min: 5.0 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |