9VOR | pdb_00009vor

Cryo-EM Structure of Human GPR158 Bound to Nanobody Nb20

• PDB DOI: https://doi.org/10.2210/pdb9VOR/pdb
• EM Map EMD-65225: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens, Lama glama
• Expression System: Homo sapiens, Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2025-07-02 Released: 2025-12-31 
• Deposition Author(s): Laboute, T., Zucca, S., Sial, M., Sharma, M., Brunori, G., Singh, S., Singh, A., Martemyanov, K.
• Funding Organization(s): National Institutes of Health/National Eye Institute (NIH/NEI), Indian Council of Medical Research, Department of Biotechnology (DBT, India)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.47 Å
• Aggregation State: 2D ARRAY 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Targeting mGlyR with nanobodies for depression.

Laboute, T., Zucca, S., Sial, O.K., Sharma, M., Brunori, G., Singh, S., Nageswar, K.V., Peng, H., Rader, C., Becker, J.A., Le Merrer, J., Singh, A.K., Martemyanov, K.A.

(2026) Nat Commun 17: 831-831

• PubMed: 41588006 
• DOI: https://doi.org/10.1038/s41467-026-68339-x
• Primary Citation Related Structures: 
  9VOR


• PubMed Abstract: 
  

  Development of therapies for neuropsychiatric conditions is one of the greatest challenges of modern medicine. Common limitations of traditional small molecule drugs include poor efficacy, off-target side effects and difficult druggability of many targets. In this study, we report a different approach deploying small engineered single domain antibodies, known as nanobodies, for the treatment of depression, a prevalent neuropsychiatric condition. We develop highly selective nanobodies for a recently discovered glycine receptor mGlyR crucially linked to pathophysiology of depression. Using a mouse model of stress-induced depression, we show that non-invasive intranasal delivery of nanobody produces rapid and lasting anti-depressant effect. We solve an atomic structure of mGlyR bound to nanobody and use a variety of cell-based approaches to reveal the mechanism of mGlyR modulation and its impact on neural circuitry. These findings support development of biologics for the treatment of intractable brain disorders.

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Organizational Affiliation: 
• Université de Tours, INSERM, Imaging Brain & Neuropsychiatry iBraiN U1253, Tours, France.
Department of Neuroscience, The Herbert Wertheim UF Scripps Institute for Biomedical Innovation & Technology, University of Florida, Jupiter, FL, USA.
Department of Biological Sciences and Bioengineering, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh, India.
Department of Physiology and Biophysics, University of Miami Miller School of Medicine, Miami, FL, USA.
Department of Biological Sciences, Columbia University, New York, NY, USA.
BRIC-Translational Health Science and Technology Institute, Faridabad, Haryana, India.
Department of Immunology and Microbiology, The Herbert Wertheim UF Scripps Institute for Biomedical Innovation & Technology, University of Florida, Jupiter, FL, USA.
Physiologie de la Reproduction et des Comportements, Unité Mixte de Recherche Centre National de la Recherche Scientifique 7247, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement 0085, Institut National de la Santé et de la Recherche Médicale, Université de Tours, Nouzilly, France.
Department of Biological Sciences and Bioengineering, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh, India. [e-mail].
Mehta Family Centre for Engineering in Medicine, Indian Institute of Technology Kanpur, Kanpur, Uttar Pradesh, India. [e-mail].
Department of Physiology and Biophysics, University of Miami Miller School of Medicine, Miami, FL, USA. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 219.26 kDa 
• Atom Count: 10,797 
• Modeled Residue Count: 1,323 
• Deposited Residue Count: 1,862 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Metabotropic glycine receptor	A, B	781	Homo sapiens	Mutation(s): 0  Gene Names: GPR158, KIAA1136
UniProt & NIH Common Fund Data Resources
Find proteins for Q5T848 (Homo sapiens) Explore Q5T848  Go to UniProtKB:  Q5T848
PHAROS:  Q5T848 GTEx:  ENSG00000151025

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nb20	C, D [auth E]	150	Lama glama	Mutation(s): 0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PIE (Subject of Investigation/LOI)	Z [auth B]	1-palmitoyl-2-oleoyl-sn-glycero-3-phosphoinositol C43 H80 O13 P PDLAMJKMOKWLAJ-OJERQSHOSA-M
PEE (Subject of Investigation/LOI)	P [auth A]	1,2-dioleoyl-sn-glycero-3-phosphoethanolamine C41 H78 N O8 P MWRBNPKJOOWZPW-NYVOMTAGSA-N
CLR	E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], Q [auth B], R [auth B], S [auth B], T [auth B], U [auth B], V [auth B], W [auth B], X [auth B], Y [auth B]	CHOLESTEROL C27 H46 O HVYWMOMLDIMFJA-DPAQBDIFSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.47 Å
• Aggregation State: 2D ARRAY 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-31 
Deposition Author(s): Laboute, T., Zucca, S., Sial, M., Sharma, M., Brunori, G., Singh, S., Singh, A., Martemyanov, K.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Eye Institute (NIH/NEI)	United States	MH105482
National Institutes of Health/National Eye Institute (NIH/NEI)	United States	EY034339
Indian Council of Medical Research	India	Neuro/2022-NCD-I
Department of Biotechnology (DBT, India)	India	Neuro/2022-NCD-I

Revision History  

• Version 1.0: 2025-12-31
  Type: Initial release
  
• Version 1.1: 2026-02-04
  Changes: Data collection, Database references
• Version 1.2: 2026-02-18
  Changes: Data collection, Database references