1T34

ROTATION MECHANISM FOR TRANSMEMBRANE SIGNALING BY THE ATRIAL NATRIURETIC PEPTIDE RECEPTOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.237 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Crystal structure of hormone-bound atrial natriuretic peptide receptor extracellular domain: rotation mechanism for transmembrane signal transduction

Ogawa, H.Qiu, Y.Ogata, C.M.Misono, K.S.

(2004) J Biol Chem 279: 28625-28631

  • DOI: 10.1074/jbc.M313222200
  • Primary Citation of Related Structures:  
    1T34

  • PubMed Abstract: 
  • A cardiac hormone, atrial natriuretic peptide (ANP), plays a major role in blood pressure and volume regulation. ANP activities are mediated by a single span transmembrane receptor carrying intrinsic guanylate cyclase activity. ANP binding to its extracellular domain stimulates guanylate cyclase activity by an as yet unknown mechanism ...

    A cardiac hormone, atrial natriuretic peptide (ANP), plays a major role in blood pressure and volume regulation. ANP activities are mediated by a single span transmembrane receptor carrying intrinsic guanylate cyclase activity. ANP binding to its extracellular domain stimulates guanylate cyclase activity by an as yet unknown mechanism. Here we report the crystal structure of dimerized extracellular hormone-binding domain in complex with ANP. The structural comparison with the unliganded receptor reveals that hormone binding causes the two receptor monomers to undergo an intermolecular twist with little intramolecular conformational change. This motion produces a Ferris wheel-like translocation of two juxtamembrane domains in the dimer with essentially no change in the interdomain distance. This movement alters the relative orientation of the two domains by a shift equivalent to counterclockwise rotation of each by 24 degrees. These results suggest that transmembrane signaling by the ANP receptor is initiated via a hormone-induced rotation mechanism.


    Related Citations: 
    • Crystallization and preliminary x-ray analysis of atrial natriuretic peptide (anp) receptor extracellular domain complex with anp: use of ammonium sulfate as the cryosalt
      Ogawa, H., Zhang, X., Qiu, Y., Ogata, C.M., Misono, K.S.
      (2003) Acta Crystallogr D Biol Crystallogr 59: 1831
    • Constitutive activation and uncoupling of the atrial natriuretic peptide receptor by mutations at the dimer interface: role of dimer interface in signaling
      Qiu, Y., Ogawa, H., Miyagi, M., Misono, K.S.
      (2004) J Biol Chem 279: 6115

    Organizational Affiliation

    Lerner Research Institute, Cleveland Clinic Foundation, Cleveland, OH 44195, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Atrial natriuretic peptide receptor AA, B435Rattus norvegicusMutation(s): 0 
Gene Names: Npr1
EC: 4.6.1.2
UniProt
Find proteins for P18910 (Rattus norvegicus)
Explore P18910 
Go to UniProtKB:  P18910
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Atrial natriuretic peptide factorC [auth H]21N/AMutation(s): 0 
UniProt
Find proteins for P01161 (Rattus norvegicus)
Explore P01161 
Go to UniProtKB:  P01161
Protein Feature View
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  • Reference Sequence
Oligosaccharides

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Entity ID: 3
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseD [auth C], E [auth D], F [auth E], G [auth F]2N-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download Ideal Coordinates CCD File 
H [auth A], I [auth B]CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.237 
  • R-Value Observed: 0.237 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 100.131α = 90
b = 100.131β = 90
c = 259.803γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
SCALEPACKdata scaling
CNSrefinement
DENZOdata reduction
CNSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-08-03
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2019-07-24
    Changes: Data collection, Derived calculations, Refinement description
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Atomic model, Data collection, Derived calculations, Structure summary