5WIE

Crystal structure of a Kv1.2-2.1 chimera K+ channel V406W mutant in an inactivated state


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.236 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of an inactivated mutant mammalian voltage-gated K(+) channel.

Pau, V.Zhou, Y.Ramu, Y.Xu, Y.Lu, Z.

(2017) Nat. Struct. Mol. Biol. 24: 857-865

  • DOI: 10.1038/nsmb.3457

  • PubMed Abstract: 
  • C-type inactivation underlies important roles played by voltage-gated K+ (Kv) channels. Functional studies have provided strong evidence that a common underlying cause of this type of inactivation is an alteration near the extracellular end of the ch ...

    C-type inactivation underlies important roles played by voltage-gated K+ (Kv) channels. Functional studies have provided strong evidence that a common underlying cause of this type of inactivation is an alteration near the extracellular end of the channel's ion-selectivity filter. Unlike N-type inactivation, which is known to reflect occlusion of the channel's intracellular end, the structural mechanism of C-type inactivation remains controversial and may have many detailed variations. Here we report that in voltage-gated Shaker K+ channels lacking N-type inactivation, a mutation enhancing inactivation disrupts the outermost K+ site in the selectivity filter. Furthermore, in a crystal structure of the Kv1.2-2.1 chimeric channel bearing the same mutation, the outermost K+ site, which is formed by eight carbonyl-oxygen atoms, appears to be slightly too small to readily accommodate a K+ ion and in fact exhibits little ion density; this structural finding is consistent with the functional hallmark of C-type inactivation.


    Organizational Affiliation

    Department of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Voltage-gated potassium channel subunit beta-2
A, G
333Rattus norvegicusMutation(s): 0 
Gene Names: Kcnab2 (Ckbeta2, Kcnb3)
EC: 1.1.1.-
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Channels: Potassium, Sodium, & Proton Ion-Selective
Protein: 
Kv1.2/Kv2.1 Voltage-gated potassium channel chimera
Find proteins for P62483 (Rattus norvegicus)
Go to UniProtKB:  P62483
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Potassium voltage-gated channel subfamily A member 2,Potassium voltage-gated channel subfamily A member 2
B, H
532Rattus norvegicusMutation(s): 1 
Gene Names: Kcna2, Kcnb1
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Channels: Potassium, Sodium, & Proton Ion-Selective
Protein: 
Kv1.2/Kv2.1 Voltage-gated potassium channel chimera
Find proteins for P63142 (Rattus norvegicus)
Go to UniProtKB:  P63142
Find proteins for P15387 (Rattus norvegicus)
Go to UniProtKB:  P15387
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
K
Query on K

Download SDF File 
Download CCD File 
B, H
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
NAP
Query on NAP

Download SDF File 
Download CCD File 
A, G
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
 Ligand Interaction
PGW
Query on PGW

Download SDF File 
Download CCD File 
B, H
(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate
1-Palmitoyl-2-Oleoyl-sn-Glycero-3-[Phospho-(1-glycerol)]; PHOSPHATIDYLGLYCEROL
C40 H77 O10 P
PAZGBAOHGQRCBP-HGWHEPCSSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.236 
  • Space Group: P 4 21 2
Unit Cell:
Length (Å)Angle (°)
a = 143.124α = 90.00
b = 143.124β = 90.00
c = 284.510γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data scaling
HKL-2000data reduction
CNSphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesR01GM055560
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney DiseaseUnited StatesRO1DK109919

Revision History 

  • Version 1.0: 2017-08-30
    Type: Initial release
  • Version 1.1: 2017-09-13
    Type: Database references
  • Version 1.2: 2017-09-27
    Type: Author supporting evidence
  • Version 1.3: 2017-10-18
    Type: Database references