3AUW

Cytoplasmic domain of inward rectifier potassium channel Kir3.2 in complex with cadmium


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.56 Å
  • R-Value Free: 0.331 
  • R-Value Work: 0.281 
  • R-Value Observed: 0.286 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Inverse agonist-like action of cadmium on G-protein-gated inward-rectifier K(+) channels

Inanobe, A.Matsuura, T.Nakagawa, A.Kurachi, Y.

(2011) Biochem Biophys Res Commun 407: 366-371

  • DOI: 10.1016/j.bbrc.2011.03.025
  • Primary Citation of Related Structures:  
    3AUW

  • PubMed Abstract: 
  • The gate at the pore-forming domain of potassium channels is allosterically controlled by a stimulus-sensing domain. Using Cd²(+) as a probe, we examined the structural elements responsible for gating in an inward-rectifier K(+) channel (Kir3.2). One ...

    The gate at the pore-forming domain of potassium channels is allosterically controlled by a stimulus-sensing domain. Using Cd²(+) as a probe, we examined the structural elements responsible for gating in an inward-rectifier K(+) channel (Kir3.2). One of four endogenous cysteines facing the cytoplasm contributes to a high-affinity site for inhibition by internal Cd²(+). Crystal structure of its cytoplasmic domain in complex with Cd²(+) reveals that octahedral coordination geometry supports the high-affinity binding. This mode of action causes the tethering of the N-terminus to CD loop in the stimulus-sensing domain, suggesting that their conformational changes participate in gating and Cd²(+) inhibits Kir3.2 by trapping the conformation in the closed state like "inverse agonist".


    Organizational Affiliation

    Department of Pharmacology, Graduate School of Medicine, Osaka University, Osaka, Japan. inanobe@pharma2.med.osaka-u.ac.jp



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Potassium inwardly-rectifying channel, subfamily J, member 6AC26Mus musculusMutation(s): 0 
Gene Names: Kcnj6Girk2Kcnj7W
Find proteins for P48542 (Mus musculus)
Explore P48542 
Go to UniProtKB:  P48542
NIH Common Fund Data Resources
IMPC  MGI:104781
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Potassium inwardly-rectifying channel, subfamily J, member 6BD182Mus musculusMutation(s): 0 
Gene Names: Kcnj6Girk2Kcnj7W
Find proteins for P48542 (Mus musculus)
Explore P48542 
Go to UniProtKB:  P48542
NIH Common Fund Data Resources
IMPC  MGI:104781
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.56 Å
  • R-Value Free: 0.331 
  • R-Value Work: 0.281 
  • R-Value Observed: 0.286 
  • Space Group: P 4 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 100.808α = 90
b = 100.808β = 90
c = 105.812γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-10-05
    Type: Initial release
  • Version 1.1: 2017-10-11
    Changes: Refinement description