4RES image
Entry Detail
PDB ID:
4RES
Title:
Crystal structure of the Na,K-ATPase E2P-bufalin complex with bound potassium
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2014-09-23
Release Date:
2015-01-28
Method Details:
Experimental Method:
Resolution:
3.41 Å
R-Value Free:
0.28
R-Value Work:
0.24
R-Value Observed:
0.24
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Sodium/potassium-transporting ATPase subunit alpha-1
Chain IDs:A, D (auth: C)
Chain Length:1021
Number of Molecules:2
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Description:Sodium/potassium-transporting ATPase subunit beta-1
Chain IDs:B, E (auth: D)
Chain Length:303
Number of Molecules:2
Biological Source:Sus scrofa
Polymer Type:polypeptide(L)
Description:Na+/K+ ATPase gamma subunit transcript variant a
Chain IDs:C (auth: G), F (auth: E)
Chain Length:65
Number of Molecules:2
Biological Source:Sus scrofa
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
ASN E ASN GLYCOSYLATION SITE
PHD A ASP ASPARTYL PHOSPHATE
Peptide-like Molecules
PRD_900003
Primary Citation
Structures and characterization of digoxin- and bufalin-bound Na+,K+-ATPase compared with the ouabain-bound complex.
Proc.Natl.Acad.Sci.USA 112 1755 1760 (2015)
PMID: 25624492 DOI: 10.1073/pnas.1422997112

Abstact

Cardiotonic steroids (CTSs) are specific and potent inhibitors of the Na(+),K(+)-ATPase, with highest affinity to the phosphoenzyme (E2P) forms. CTSs are comprised of a steroid core, which can be glycosylated, and a varying number of substituents, including a five- or six-membered lactone. These functionalities have specific influence on the binding properties. We report crystal structures of the Na(+),K(+)-ATPase in the E2P form in complex with bufalin (a nonglycosylated CTS with a six-membered lactone) and digoxin (a trisaccharide-conjugated CTS with a five-membered lactone) and compare their characteristics and binding kinetics with the previously described E2P-ouabain complex to derive specific details and the general mechanism of CTS binding and inhibition. CTSs block the extracellular cation exchange pathway, and cation-binding sites I and II are differently occupied: A single Mg(2+) is bound in site II of the digoxin and ouabain complexes, whereas both sites are occupied by K(+) in the E2P-bufalin complex. In all complexes, αM4 adopts a wound form, characteristic for the E2P state and favorable for high-affinity CTS binding. We conclude that the occupants of the cation-binding site and the type of the lactone substituent determine the arrangement of αM4 and hypothesize that winding/unwinding of αM4 represents a trigger for high-affinity CTS binding. We find that the level of glycosylation affects the depth of CTS binding and that the steroid core substituents fine tune the configuration of transmembrane helices αM1-2.

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