4GVL

Crystal Structure of the GsuK RCK domain

• PDB DOI: https://doi.org/10.2210/pdb4GVL/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Geobacter sulfurreducens PCA
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 
• Membrane Protein: Yes  mpstruc


• Deposited: 2012-08-30 Released: 2012-12-26 
• Deposition Author(s): Kong, C., Zeng, W., Ye, S., Chen, L., Sauer, D.B., Lam, Y., Derebe, M.G., Jiang, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.262 
• R-Value Work: 0.228 
• R-Value Observed: 0.229 

Starting Model: experimental

Literature

Distinct gating mechanisms revealed by the structures of a multi-ligand gated K(+) channel.

Kong, C., Zeng, W., Ye, S., Chen, L., Sauer, D.B., Lam, Y., Derebe, M.G., Jiang, Y.

(2012) Elife 1: e00184-e00184

• PubMed: 23240087 
• DOI: https://doi.org/10.7554/eLife.00184
• Primary Citation of Related Structures:  
  4GVL, 4GX0, 4GX1, 4GX2, 4GX5


• PubMed Abstract: 
  

  The gating ring-forming RCK domain regulates channel gating in response to various cellular chemical stimuli in eukaryotic Slo channel families and the majority of ligand-gated prokaryotic K(+) channels and transporters. Here we present structural and functional studies of a dual RCK-containing, multi-ligand gated K(+) channel from Geobacter sulfurreducens, named GsuK. We demonstrate that ADP and NAD(+) activate the GsuK channel, whereas Ca(2+) serves as an allosteric inhibitor. Multiple crystal structures elucidate the structural basis of multi-ligand gating in GsuK, and also reveal a unique ion conduction pore with segmented inner helices. Structural comparison leads us to propose a novel pore opening mechanics that is distinct from other K(+) channels.DOI:http://dx.doi.org/10.7554/eLife.00184.001.

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Organizational Affiliation: 

Department of Physiology , University of Texas Southwestern Medical Center , Dallas , United States.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 202.37 kDa 
• Atom Count: 13,940 
• Modelled Residue Count: 1,820 
• Deposited Residue Count: 1,848 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TrkA domain protein	A, B, C, D	462	Geobacter sulfurreducens PCA	Mutation(s): 0  Gene Names: GSU0527 Membrane Entity: Yes
UniProt
Find proteins for Q74FS9 (Geobacter sulfurreducens (strain ATCC 51573 / DSM 12127 / PCA)) Explore Q74FS9  Go to UniProtKB:  Q74FS9

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AMP	F [auth A], J [auth B], M [auth C], P [auth D]	ADENOSINE MONOPHOSPHATE C10 H14 N5 O7 P UDMBCSSLTHHNCD-KQYNXXCUSA-N
ZN	E [auth A], I [auth B], L [auth C], O [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CA	G [auth A], H [auth A], K [auth B], N [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.262 
• R-Value Work: 0.228 
• R-Value Observed: 0.229 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 110.648	α = 90
b = 161.693	β = 90
c = 310.127	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-12-26 
Deposition Author(s): Kong, C., Zeng, W., Ye, S., Chen, L., Sauer, D.B., Lam, Y., Derebe, M.G., Jiang, Y.

Revision History  

• Version 1.0: 2012-12-26
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description