6DZ1

Studies of Ion Transport in K+ Channels


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.180 

wwPDB Validation 3D Report Full Report



Literature

Anomalous X-ray diffraction studies of ion transport in K+channels.

Langan, P.S.Vandavasi, V.G.Weiss, K.L.Afonine, P.V.El Omari, K.Duman, R.Wagner, A.Coates, L.

(2018) Nat Commun 9: 4540-4540

  • DOI: 10.1038/s41467-018-06957-w
  • Primary Citation of Related Structures:  
    6DZ1

  • PubMed Abstract: 
  • Potassium ion channels utilize a highly selective filter to rapidly transport K + ions across cellular membranes. This selectivity filter is composed of four binding sites which display almost equal electron density in crystal structures ...

    Potassium ion channels utilize a highly selective filter to rapidly transport K + ions across cellular membranes. This selectivity filter is composed of four binding sites which display almost equal electron density in crystal structures with high potassium ion concentrations. This electron density can be interpreted to reflect a superposition of alternating potassium ion and water occupied states or as adjacent potassium ions. Here, we use single wavelength anomalous dispersion (SAD) X-ray diffraction data collected near the potassium absorption edge to show experimentally that all ion binding sites within the selectivity filter are fully occupied by K + ions. These data support the hypothesis that potassium ion transport occurs by direct Coulomb knock-on, and provide an example of solving the phase problem by K-SAD.


    Organizational Affiliation

    Neutron Scattering Division, Oak Ridge National Laboratory, 1 Bethel Valley Rd, Oak Ridge, TN, 37831, USA. coatesl@ornl.gov.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Potassium channel proteinAB95Bacillus cereus BDRD-Cer4Mutation(s): 0 
Gene Names: bcere0015_5640
Find proteins for C2SWC7 (Bacillus cereus BDRD-Cer4)
Explore C2SWC7 
Go to UniProtKB:  C2SWC7
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MPD
Query on MPD

Download CCD File 
A, B
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
 Ligand Interaction
K
Query on K

Download CCD File 
A, B
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.26 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.180 
  • Space Group: I 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 68.07α = 90
b = 68.07β = 90
c = 89.38γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
SHELXDEphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-11-14
    Type: Initial release