6PV7

Human alpha3beta4 nicotinic acetylcholine receptor in complex with nicotine

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.34 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history. 


Literature

Agonist Selectivity and Ion Permeation in the alpha 3 beta 4 Ganglionic Nicotinic Receptor.

Gharpure, A., Teng, J., Zhuang, Y., Noviello, C.M., Walsh Jr., R.M., Cabuco, R., Howard, R.J., Zaveri, N.T., Lindahl, E., Hibbs, R.E.

(2019) Neuron 104: 501

  • DOI: https://doi.org/10.1016/j.neuron.2019.07.030
  • Primary Citation of Related Structures:  
    6PV7, 6PV8

  • PubMed Abstract: 

    • Nicotinic acetylcholine receptors are pentameric ion channels that mediate fast chemical neurotransmission. The α3β4 nicotinic receptor subtype forms the principal relay between the central and peripheral nervous systems in the autonomic ganglia. This receptor is also expressed focally in brain areas that affect reward circuits and addiction ...

    Nicotinic acetylcholine receptors are pentameric ion channels that mediate fast chemical neurotransmission. The α3β4 nicotinic receptor subtype forms the principal relay between the central and peripheral nervous systems in the autonomic ganglia. This receptor is also expressed focally in brain areas that affect reward circuits and addiction. Here, we present structures of the α3β4 nicotinic receptor in lipidic and detergent environments, using functional reconstitution to define lipids appropriate for structural analysis. The structures of the receptor in complex with nicotine, as well as the α3β4-selective ligand AT-1001, complemented by molecular dynamics, suggest principles of agonist selectivity. The structures further reveal much of the architecture of the intracellular domain, where mutagenesis experiments and simulations define residues governing ion conductance.

    Organizational Affiliation: 

    Department of Neuroscience, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA. Electronic address: ryan.hibbs@utsouthwestern.edu.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fusion protein of Neuronal acetylcholine receptor subunit alpha-3 and Soluble cytochrome b562A, D525Homo sapiens, Escherichia coli O11Mutation(s): 0 
Gene Names: CHRNA3, NACHRA3, CWJ32_12820
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P32297 (Homo sapiens)
Explore P32297 
Go to UniProtKB:  P32297
PHAROS:  P32297
Entity Groups  
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UniProt GroupP32297
Protein Feature View
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Fusion protein of Neuronal acetylcholine receptor subunit beta-4 and Soluble cytochrome b562B, C, E538Homo sapiens, Escherichia coli O11Mutation(s): 0 
Gene Names: CHRNB4, CWJ32_12820
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P30926 (Homo sapiens)
Explore P30926 
Go to UniProtKB:  P30926
PHAROS:  P30926
Entity Groups  
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UniProt GroupP30926
Protein Feature View
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
IgG2b Fab heavy chainF, H219Mus musculusMutation(s): 0 
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Kappa Fab light chainG, I213Mus musculusMutation(s): 0 
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  • Reference Sequence
Oligosaccharides

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Entity ID: 5
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseJ, P 2N-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Entity ID: 6
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseK, M, O, Q, S 5N-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G22768VO
GlyCosmos:  G22768VO
GlyGen:  G22768VO
Entity ID: 7
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseL, N, R 3N-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
Y01
Query on Y01
Download Ideal Coordinates CCD File 
AA [auth B],
DA [auth C],
EA [auth C],
HA [auth D],
IA [auth D],
AA [auth B],
DA [auth C],
EA [auth C],
HA [auth D],
IA [auth D],
LA [auth E],
MA [auth E],
U [auth A],
V [auth A],
Z [auth B]
CHOLESTEROL HEMISUCCINATE
C31 H50 O4
WLNARFZDISHUGS-MIXBDBMTSA-N		 Ligand Interaction
NAG
Query on NAG
Download Ideal Coordinates CCD File 
BA [auth C],
CA [auth C],
JA [auth E],
KA [auth E],
X [auth B],
BA [auth C],
CA [auth C],
JA [auth E],
KA [auth E],
X [auth B],
Y [auth B]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N		 Ligand Interaction
NCT (Subject of Investigation/LOI)
Query on NCT
Download Ideal Coordinates CCD File 
GA [auth D],
T [auth A]		(S)-3-(1-METHYLPYRROLIDIN-2-YL)PYRIDINE
C10 H14 N2
SNICXCGAKADSCV-JTQLQIEISA-N		 Ligand Interaction
DD9
Query on DD9
Download Ideal Coordinates CCD File 
FA [auth C]nonane
C9 H20
BKIMMITUMNQMOS-UHFFFAOYSA-N		 Ligand Interaction
NA
Query on NA
Download Ideal Coordinates CCD File 
W [auth A]SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.34 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Welch FoundationUnited StatesI-1812
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)United StatesT32DA07290
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM008203
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)United StatesDA037492
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)United StatesDA042072
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesNS095899

Revision History  (Full details and data files)

  • Version 1.0: 2019-09-11
    Type: Initial release
  • Version 1.1: 2019-09-18
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-20
    Changes: Database references
  • Version 1.3: 2019-12-11
    Changes: Author supporting evidence
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary