Evidence map›Paper›PMID 40461871›Full record

ArticleNature structural & molecular biology2025

Substrate recognition and allosteric regulation of synaptic vesicle glutamate transporter VGLUT2.

Fei Li, Jacob Eriksen, Juan A Oses-Prieto, Yessica K Gomez, Hongfei Xu, Surabhi Hareendranath, Poulomi Das, Janet Finer-Moore, Phuong Nguyen, Alisa Bowen and 5 more

Abstract read
In one paragraph

Article in Nature structural & molecular biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. pH-dependent regulation in SLC38A9.bioRxiv : the preprint server for biology · 2025
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

15 authors.

Fei Li *Department of Biochemistry and Biophysics, UCSF School of Medicine, San Francisco, CA, USA. fli05@amgen.com.ORCID http://orcid.org/0000-0003-0720-3129
Jacob Eriksen *Departments of Neurology and Physiology, UCSF School of Medicine, San Francisco, CA, USA.ORCID http://orcid.org/0000-0003-0726-9769
Juan A Oses-PrietoDepartment of Pharmaceutical Chemistry, UCSF School of Medicine, San Francisco, CA, USA.
Yessica K GomezDepartment of Pharmaceutical Chemistry, UCSF School of Medicine, San Francisco, CA, USA.
Hongfei XuDepartments of Neurology and Physiology, UCSF School of Medicine, San Francisco, CA, USA.ORCID http://orcid.org/0000-0003-1381-2123
Surabhi HareendranathDepartments of Neurology and Physiology, UCSF School of Medicine, San Francisco, CA, USA.
Poulomi DasDepartments of Neurology and Physiology, UCSF School of Medicine, San Francisco, CA, USA.
Janet Finer-MooreDepartment of Biochemistry and Biophysics, UCSF School of Medicine, San Francisco, CA, USA.
Phuong NguyenDepartment of Biochemistry and Biophysics, UCSF School of Medicine, San Francisco, CA, USA.
Alisa BowenDepartment of Biochemistry and Biophysics, UCSF School of Medicine, San Francisco, CA, USA.
Andrew NelsonDepartment of Biochemistry and Biophysics, UCSF School of Medicine, San Francisco, CA, USA.
Alma BurlingameDepartment of Pharmaceutical Chemistry, UCSF School of Medicine, San Francisco, CA, USA.ORCID http://orcid.org/0000-0002-8403-7307
Michael GrabeDepartment of Pharmaceutical Chemistry, UCSF School of Medicine, San Francisco, CA, USA.ORCID http://orcid.org/0000-0003-3509-5997
Robert M StroudDepartment of Biochemistry and Biophysics, UCSF School of Medicine, San Francisco, CA, USA. stroud@msg.ucsf.edu.ORCID http://orcid.org/0000-0003-2083-5665
Robert H EdwardsDepartments of Neurology and Physiology, UCSF School of Medicine, San Francisco, CA, USA. robert.edwards@ucsf.edu.ORCID http://orcid.org/0000-0002-8650-3260

Funding

The Stanford-SLAC CryoEM Center supplementU24GM129541 · NIGMS · STANFORD UNIVERSITY · PI CHIU, WAH, HEDMAN, BRITT · 2018 to 2023
$54.8M
Structural Basis of Vesicular Neurotransmitter TransportR01NS089713 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI EDWARDS, ROBERT H, STROUD, ROBERT M · 2015 to 2023
$5.8M
Transport of Neurotransmitter Into Synaptic VesiclesR37MH050712 · NIMH · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI EDWARDS, ROBERT H · 2012 to 2020
$3.5M
Computational Studies of Sodium SymportersR01GM089740 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI GRABE, MICHAEL · 2011 to 2020
$2.8M
Acquisition of an electron microscope for high-resolution single particle cryo-EMS10OD021741 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHENG, YIFAN · 2016 to 2016
$2.0M
Glutamate Transport into Synaptic VesiclesR01NS129803 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI ROBERT H EDWARDS · 2023 to 2026
$2.0M
Glacios™ Cryo Transmission Electron Microscope with 200 kV XFEG opticsS10OD026881 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHENG, YIFAN · 2019 to 2019
$1.8M
Ion permeation, lipid flipping, and membrane remodeling by TMEM16 proteinsR01GM137109 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI GRABE, MICHAEL · 2021 to 2024
$1.4M
Molecular Basis for Transmembrane Conduction & SignalingR35GM156263 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Robert M Stroud · 2025 to 2026
$1.2M
Linux cluster for near atomic resolution single particle cryo-EMS10OD020054 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHENG, YIFAN · 2015 to 2015
$456k
Structural Basis of Quantal ReleaseK99MH119591 · NIMH · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LI, FEI · 2019 to 2020
$242k
NIGMS NIH HHS R01 GM089740NIGMS NIH HHS R01 GM137109NIGMS NIH HHS R35 GM156263NIGMS NIH HHS U24 GM129541NIH HHS S10 OD020054NIH HHS S10 OD021741NIH HHS S10 OD026881NIMH NIH HHS K99 MH119591NIMH NIH HHS R37 MH050712NINDS NIH HHS R01 NS089713NINDS NIH HHS R01 NS129803
6 · The paper itself

Abstract

The concentration of neurotransmitters inside synaptic vesicles (SVs) underlies the quantal nature of synaptic transmission. Uptake of glutamate, the principal excitatory neurotransmitter, is driven by membrane potential. To prevent nonquantal efflux of glutamate after SV exocytosis, the vesicular glutamate transporters (VGLUTs) are allosterically inhibited by the neutral pH of the synaptic cleft. To elucidate the mechanism, we determined high-resolution structures of rat VGLUT2 with a cyclic analog of glutamate. We propose a mechanism of substrate recognition in which a positively charged cytoplasmic vestibule electrostatically attracts the negatively charged substrate. We also identify modification of VGLUT2 by palmitoylation and find that this promotes retrieval of the transporter after exocytosis. The structure also reveals an extensive network of electrostatic interactions that forms the cytoplasmic gate. Functional analysis of a mutant that disrupts the network shows how this cytoplasmic gate confers the allosteric requirement for lumenal H

Indexed as

Synaptic VesiclesVesicular Glutamate Transport Protein 2Allosteric RegulationAnimalsExocytosisGlutamic AcidModels, MolecularRatsGlutamic AcidSlc17a6 protein, ratVesicular Glutamate Transport Protein 2

Identifiers

PMID40461871
PMCPMC12702523

What Socratic holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.