6HUO

CryoEM structure of human full-length heteromeric alpha1beta3gamma2L GABA(A)R in complex with alprazolam (Xanax), GABA and megabody Mb38.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.26 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

GABAAreceptor signalling mechanisms revealed by structural pharmacology.

Masiulis, S.Desai, R.Uchanski, T.Serna Martin, I.Laverty, D.Karia, D.Malinauskas, T.Zivanov, J.Pardon, E.Kotecha, A.Steyaert, J.Miller, K.W.Aricescu, A.R.

(2019) Nature 565: 454-459

  • DOI: 10.1038/s41586-018-0832-5
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Type-A γ-aminobutyric (GABA <sub>A </sub>) receptors are ligand-gated chloride channels with a very rich pharmacology. Some of their modulators, including benzodiazepines and general anaesthetics, are among the most successful drugs in clinical use a ...

    Type-A γ-aminobutyric (GABA A ) receptors are ligand-gated chloride channels with a very rich pharmacology. Some of their modulators, including benzodiazepines and general anaesthetics, are among the most successful drugs in clinical use and are common substances of abuse. Without reliable structural data, the mechanistic basis for the pharmacological modulation of GABA A receptors remains largely unknown. Here we report several high-resolution cryo-electron microscopy structures in which the full-length human α1β3γ2L GABA A receptor in lipid nanodiscs is bound to the channel-blocker picrotoxin, the competitive antagonist bicuculline, the agonist GABA (γ-aminobutyric acid), and the classical benzodiazepines alprazolam and diazepam. We describe the binding modes and mechanistic effects of these ligands, the closed and desensitized states of the GABA A receptor gating cycle, and the basis for allosteric coupling between the extracellular, agonist-binding region and the transmembrane, pore-forming region. This work provides a structural framework in which to integrate previous physiology and pharmacology research and a rational basis for the development of GABA A receptor modulators.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK. simonasm@mrc-lmb.cam.ac.uk.,Department of Anesthesia, Critical Care and Pain Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.,Division of Structural Biology, Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK.,Division of Structural Biology, Wellcome Centre for Human Genetics, University of Oxford, Oxford, UK. radu@mrc-lmb.cam.ac.uk.,Materials and Structural Analysis, Thermo Fisher Scientific, Eindhoven, The Netherlands.,MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK. radu@mrc-lmb.cam.ac.uk.,VIB-VUB Center for Structural Biology, VIB, Brussels, Belgium.,Structural Biology Brussels, Vrije Universiteit Brussel (VUB), Brussels, Belgium.,MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK.,Department of Anesthesia, Critical Care and Pain Medicine, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA. kwmiller@mgh.harvard.edu.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Gamma-aminobutyric acid receptor subunit alpha-1,Gamma-aminobutyric acid receptor subunit alpha-1
A, D
464Homo sapiensBos taurus
This entity is chimeric
Mutation(s): 0 
Gene Names: GABRA1, GABRA1
Find proteins for P14867 (Homo sapiens)
Go to Gene View: GABRA1
Go to UniProtKB:  P14867
Find proteins for P08219 (Bos taurus)
Go to Gene View: GABRA1
Go to UniProtKB:  P08219
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Gamma-aminobutyric acid receptor subunit beta-3
B, E
473Homo sapiensMutation(s): 0 
Gene Names: GABRB3
Find proteins for P28472 (Homo sapiens)
Go to Gene View: GABRB3
Go to UniProtKB:  P28472
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Gamma-aminobutyric acid receptor subunit gamma-2
C
495Homo sapiensMutation(s): 0 
Gene Names: GABRG2
Find proteins for P18507 (Homo sapiens)
Go to Gene View: GABRG2
Go to UniProtKB:  P18507
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Megabody Mb38
G
539N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PIO
Query on PIO

Download SDF File 
Download CCD File 
A, D
[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate
dioctanoyl l-alpha-phosphatidyl-d-myo-inositol 4,5-diphosphate
C25 H49 O19 P3
XLNCEHRXXWQMPK-MJUMVPIBSA-N
 Ligand Interaction
MAN
Query on MAN

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Download CCD File 
A, B, D, E
ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
 Ligand Interaction
08H
Query on 08H

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Download CCD File 
D
8-chloro-1-methyl-6-phenyl-4H-[1,2,4]triazolo[4,3-a][1,4]benzodiazepine
ALPRAZOLAM
C17 H13 Cl N4
VREFGVBLTWBCJP-UHFFFAOYSA-N
 Ligand Interaction
BMA
Query on BMA

Download SDF File 
Download CCD File 
A, B, D, E
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B, C, D, E
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
ABU
Query on ABU

Download SDF File 
Download CCD File 
A, E
GAMMA-AMINO-BUTANOIC ACID
GAMMA(AMINO)-BUTYRIC ACID
C4 H9 N O2
BTCSSZJGUNDROE-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.26 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMR/L009609/1
Medical Research Council (United Kingdom)United KingdomMC_UP_1201/15
Medical Research Council (United Kingdom)United KingdomMC_UP_A025_1013
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/M024709/1
Cancer Research UKUnited KingdomC20724/A14414
Human Frontier Science ProgramUnited KingdomRGP0065/2014
Swiss National Science FoundationSwitzerland168735
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM 58448

Revision History 

  • Version 1.0: 2019-01-02
    Type: Initial release
  • Version 1.1: 2019-01-16
    Type: Data collection, Database references
  • Version 1.2: 2019-01-23
    Type: Data collection, Database references