7SMT

Cryo-EM structure of Torpedo acetylcholine receptor in complex with d-tubocurarine and carbachol


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.56 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

Structural mechanism of muscle nicotinic receptor desensitization and block by curare.

Rahman, M.M.Basta, T.Teng, J.Lee, M.Worrell, B.T.Stowell, M.H.B.Hibbs, R.E.

(2022) Nat Struct Mol Biol 29: 386-394

  • DOI: 10.1038/s41594-022-00737-3
  • Primary Citation of Related Structures:  
    7SMM, 7SMQ, 7SMR, 7SMS, 7SMT

  • PubMed Abstract: 
  • Binding of the neurotransmitter acetylcholine to its receptors on muscle fibers depolarizes the membrane and thereby triggers muscle contraction. We sought to understand at the level of three-dimensional structure how agonists and antagonists alter nicotinic acetylcholine receptor conformation ...

    Binding of the neurotransmitter acetylcholine to its receptors on muscle fibers depolarizes the membrane and thereby triggers muscle contraction. We sought to understand at the level of three-dimensional structure how agonists and antagonists alter nicotinic acetylcholine receptor conformation. We used the muscle-type receptor from the Torpedo ray to first define the structure of the receptor in a resting, activatable state. We then determined the receptor structure bound to the agonist carbachol, which stabilizes an asymmetric, closed channel desensitized state. We find conformational changes in a peripheral membrane helix are tied to recovery from desensitization. To probe mechanisms of antagonism, we obtained receptor structures with the active component of curare, a poison arrow toxin and precursor to modern muscle relaxants. d-Tubocurarine stabilizes the receptor in a desensitized-like state in the presence and absence of agonist. These findings define the transitions between resting and desensitized states and reveal divergent means by which antagonists block channel activity of the muscle-type nicotinic receptor.


    Organizational Affiliation

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



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Acetylcholine receptor subunit alphaA, D437Tetronarce californicaMutation(s): 0 
Gene Names: CHRNA1
Membrane Entity: Yes 
UniProt
Find proteins for P02710 (Tetronarce californica)
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Go to UniProtKB:  P02710
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02710
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Acetylcholine receptor subunit deltaB501Tetronarce californicaMutation(s): 0 
Gene Names: chrnd
Membrane Entity: Yes 
UniProt
Find proteins for P02718 (Tetronarce californica)
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Go to UniProtKB:  P02718
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UniProt GroupP02718
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Acetylcholine receptor subunit betaC469Tetronarce californicaMutation(s): 0 
Gene Names: CHRNB1
Membrane Entity: Yes 
UniProt
Find proteins for P02712 (Tetronarce californica)
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Go to UniProtKB:  P02712
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UniProt GroupP02712
Protein Feature View
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Acetylcholine receptor subunit gammaE489Tetronarce californicaMutation(s): 0 
Gene Names: CHRNG
Membrane Entity: Yes 
UniProt
Find proteins for P02714 (Tetronarce californica)
Explore P02714 
Go to UniProtKB:  P02714
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UniProt GroupP02714
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 5
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
alpha-D-mannopyranose-(1-6)-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-glucopyranoseF, I, J 5N/AN-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G94626GC
GlyCosmos:  G94626GC
GlyGen:  G94626GC
Entity ID: 6
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseG 2N/AN-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
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-glucopyranoseH 3N/AN-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
POV
Query on POV

Download Ideal Coordinates CCD File 
M [auth A],
O [auth B],
Q [auth C],
R [auth C],
V [auth D]
(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate
C42 H82 N O8 P
WTJKGGKOPKCXLL-PFDVCBLKSA-N
 Ligand Interaction
TC9 (Subject of Investigation/LOI)
Query on TC9

Download Ideal Coordinates CCD File 
T [auth D]D-TUBOCURARINE
C37 H42 N2 O6
JFJZZMVDLULRGK-URLMMPGGSA-P
 Ligand Interaction
CLR
Query on CLR

Download Ideal Coordinates CCD File 
L [auth A],
S [auth C],
U [auth D]
CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N
 Ligand Interaction
NAG
Query on NAG

Download Ideal Coordinates CCD File 
N [auth B],
W [auth E]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
CCE
Query on CCE

Download Ideal Coordinates CCD File 
K [auth A]2-[(AMINOCARBONYL)OXY]-N,N,N-TRIMETHYLETHANAMINIUM
C6 H15 N2 O2
VPJXQGSRWJZDOB-UHFFFAOYSA-O
 Ligand Interaction
DD9 (Subject of Investigation/LOI)
Query on DD9

Download Ideal Coordinates CCD File 
P [auth B]nonane
C9 H20
BKIMMITUMNQMOS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.56 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-09
    Type: Initial release
  • Version 1.1: 2022-03-30
    Changes: Database references
  • Version 1.2: 2022-04-27
    Changes: Database references