9QJR | pdb_00009qjr

GABA-A receptor a2b3 (1:4) + a2NB29(near-silent) + b3Mb125 + GABA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.92 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9QJR

This is version 1.0 of the entry. See complete history

Literature

Determining the molecular and physiological actions of subtype-selective nanobodies of GABA A receptors.

Gonzalez-Prada, J.E.Liu, S.Shang, C.Chernoff, C.S.Bright, D.P.Mortensen, M.Jones, C.F.Nestorow, S.Kasaragod, V.B.Chen, W.N.Hannan, S.Zhou, J.Dunn, A.W.E.Soltani, A.Turner, R.J.Duggan, N.M.Yuan, Y.Wahid, A.A.Hardwick, S.W.Scott, S.Chirgadze, D.Y.Pardon, E.Steyaert, J.Aricescu, A.R.Paulsen, O.Belin, D.Smart, T.G.Miller, P.S.

(2026) Sci Adv 12: eaeg3548-eaeg3548

  • DOI: https://doi.org/10.1126/sciadv.aeg3548
  • Primary Citation Related Structures: 
    9QJP, 9QJQ, 9QJR, 9QJS, 9QJV, 9QJX, 9QJY, 9QK0, 9QK1, 9TNB, 9TNS, 9TPQ

  • PubMed Abstract: 

    γ-Aminobutyric acid type-A (GABA A ) receptors are the principal mediators of inhibitory neurotransmission in the human central nervous system. The α 2 - and α 3 -containing subtypes have tightly controlled spatial expression profiles, which influence anxiety, nociception, epilepsy, and autism. α 2 3 -Selective small molecules compromise on strength of effect (efficacy) to avoid off-subtype modulation. To break this pharmacological deadlock, we study here a panel of nanobodies (NBs) raised against α 2 - and α 3 -containing GABA A receptors. We identify subtype selective silent binders, positive allosteric modulators (PAMs), and inhibitors. Cryo-electron microscopy structures explain the binding modes and molecular mechanisms of action of representative NBs. Modulators exhibit distinct synaptic and extrasynaptic functional profiles in brain slices and neuronal networks and can reduce anxiety in vivo. These selective and efficacious NBs (whether inhibitors or positive modulators) enable strong yet precise pharmacological control of α 2 3 -containing subtypes to advance basic research and as potential therapeutic leads to treat neuropsychiatric disorders.


  • Organizational Affiliation
    • Department of Pharmacology, University of Cambridge, Cambridge, UK.

Macromolecule Content 

  • Total Structure Weight: 438.69 kDa 
  • Atom Count: 17,823 
  • Modeled Residue Count: 2,156 
  • Deposited Residue Count: 3,875 
  • Unique protein chains: 4

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Gamma-aminobutyric acid receptor subunit alpha-2365Homo sapiensMutation(s): 0 
Gene Names: GABRA2
UniProt & NIH Common Fund Data Resources
Find proteins for P47869 (Homo sapiens)
Explore P47869 
Go to UniProtKB:  P47869
PHAROS:  P47869
GTEx:  ENSG00000151834 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP47869
Glycosylation
Glycosylation Sites: 1Go to GlyGen: P47869-1
Sequence Annotations
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Gamma-aminobutyric acid receptor subunit beta-3,Gamma-aminobutyric acid receptor subunit beta-3,Gamma-aminobutyric acid receptor subunit beta-3,Soluble cytochrome b562
B, C, D, E
451Homo sapiensEscherichia coliMutation(s): 0 
Gene Names: GABRB3cybC
UniProt & NIH Common Fund Data Resources
Find proteins for P28472 (Homo sapiens)
Explore P28472 
Go to UniProtKB:  P28472
PHAROS:  P28472
GTEx:  ENSG00000166206 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP28472
Glycosylation
Glycosylation Sites: 2Go to GlyGen: P28472-1
Sequence Annotations
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
a2 nanobody 29140Lama glamaMutation(s): 0 
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Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
megabody 125
G, H, I
522Lama glamaMutation(s): 0 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
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Reference Sequence

Oligosaccharides

Help  
Entity ID: 5
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseJ [auth K],
L [auth M],
N [auth O],
P [auth Q]
2N-Glycosylation
Entity ID: 6
MoleculeChains Length2D Diagram GlycosylationD Interactions
alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseK [auth L],
M [auth N],
O [auth P],
Q [auth R]
6N-Glycosylation

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.92 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United KingdomBB/M024709/1

Revision History  (Full details and data files)

  • Version 1.0: 2026-08-26
    Type: Initial release