2WLL

POTASSIUM CHANNEL FROM BURKHOLDERIA PSEUDOMALLEI


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.65 Å
  • R-Value Free: 
    0.286 (Depositor), 0.280 (DCC) 
  • R-Value Work: 
    0.246 (Depositor), 0.240 (DCC) 
  • R-Value Observed: 
    0.248 (Depositor) 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted PLCClick on this verticalbar to view details

This is version 1.5 of the entry. See complete history

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 1P7B


Literature

Domain Reorientation and Rotation of an Intracellular Assembly Regulate Conduction in Kir Potassium Channels.

Clarke, O.B.Caputo, A.T.Hill, A.P.Vandenberg, J.I.Smith, B.J.Gulbis, J.M.

(2010) Cell 141: 1018

  • DOI: https://doi.org/10.1016/j.cell.2010.05.003
  • Primary Citation of Related Structures:  
    2WLH, 2WLI, 2WLJ, 2WLK, 2WLL, 2WLM, 2WLN, 2WLO, 2X6A, 2X6B, 2X6C

  • PubMed Abstract: 

    Potassium channels embedded in cell membranes employ gates to regulate K+ current. While a specific constriction in the permeation pathway has historically been implicated in gating, recent reports suggest that the signature ion selectivity filter located in the outer membrane leaflet may be equally important. Inwardly rectifying K+ channels also control the directionality of flow, using intracellular polyamines to stem ion efflux by a valve-like action. This study presents crystallographic evidence of interdependent gates in the conduction pathway and reveals the mechanism of polyamine block. Reorientation of the intracellular domains, concomitant with activation, instigates polyamine release from intracellular binding sites to block the permeation pathway. Conformational adjustments of the slide helices, achieved by rotation of the cytoplasmic assembly relative to the pore, are directly correlated to the ion configuration in the selectivity filter. Ion redistribution occurs irrespective of the constriction, suggesting a more expansive role of the selectivity filter in gating than previously appreciated.


  • Organizational Affiliation

    The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
POTASSIUM CHANNEL333Burkholderia pseudomalleiMutation(s): 0 
Gene Names: CHROMOSOME 1 KIRBAC1.1
Membrane Entity: Yes 
UniProt
Find proteins for P83698 (Burkholderia pseudomallei)
Explore P83698 
Go to UniProtKB:  P83698
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP83698
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
POTASSIUM CHANNEL333Burkholderia pseudomalleiMutation(s): 0 
Gene Names: CHROMOSOME 1 KIRBAC1.1
Membrane Entity: Yes 
UniProt
Find proteins for P83698 (Burkholderia pseudomallei)
Explore P83698 
Go to UniProtKB:  P83698
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP83698
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PLC
Query on PLC

Download Ideal Coordinates CCD File 
H [auth B],
I [auth B]
DIUNDECYL PHOSPHATIDYL CHOLINE
C32 H65 N O8 P
IJFVSSZAOYLHEE-SSEXGKCCSA-O
K
Query on K

Download Ideal Coordinates CCD File 
E [auth B],
F [auth B]
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
C [auth A],
D [auth A],
G [auth B]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.65 Å
  • R-Value Free:  0.286 (Depositor), 0.280 (DCC) 
  • R-Value Work:  0.246 (Depositor), 0.240 (DCC) 
  • R-Value Observed: 0.248 (Depositor) 
Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.84α = 90
b = 105.62β = 90
c = 258.63γ = 90
Software Package:
Software NamePurpose
RAVEmodel building
SCALAdata scaling
SHELXSphasing
MLPHAREphasing
DMphasing
RAVEphasing
PHENIXrefinement

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted PLCClick on this verticalbar to view details

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-06-09
    Type: Initial release
  • Version 1.1: 2012-05-30
    Changes: Database references, Other, Refinement description
  • Version 1.2: 2013-01-30
    Changes: Data collection, Database references, Other, Version format compliance
  • Version 1.3: 2019-01-30
    Changes: Data collection, Experimental preparation
  • Version 1.4: 2019-02-06
    Changes: Data collection, Experimental preparation
  • Version 1.5: 2024-05-08
    Changes: Data collection, Database references, Derived calculations, Other