6DK5 image
Deposition Date 2018-05-28
Release Date 2019-01-02
Last Version Date 2024-11-20
Entry Detail
PDB ID:
6DK5
Keywords:
Title:
The X-ray crystal structure of human endothelin-1, a polypeptide hormone regulator of blood pressure
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
1.85 Å
R-Value Free:
0.28
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 61
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Endothelin-1
Gene (Uniprot):EDN1
Chain IDs:A (auth: B), B (auth: A)
Chain Length:21
Number of Molecules:2
Biological Source:Homo sapiens
Primary Citation
The X-ray crystal structure of human endothelin 1, a polypeptide hormone regulator of blood pressure.
Acta Crystallogr F Struct Biol Commun 75 47 53 (2019)
PMID: 30605125 DOI: 10.1107/S2053230X18016011

Abstact

Human endothelin is a 21-amino-acid polypeptide, constrained by two intra-chain disulfide bridges, that is made by endothelial cells. It is the most potent vasoconstrictor in the body and is crucially important in the regulation of blood pressure. It plays a major role in a host of medical conditions, including hypertension, diabetes, stroke and cancer. Endothelin was crystallized 28 years ago in the putative space group P6122, but the structure was never successfully solved by X-ray diffraction. Using X-ray diffraction data from 1992, the structure has now been solved. Assuming a unit cell belonging to space group P61 and a twin fraction of 0.28, a solution emerged with two, almost identical, closely associated molecules in the asymmetric unit. Although the data extended to beyond 1.8 Å resolution, a model containing 25 waters was refined to 1.85 Å resolution with an R of 0.216 and an Rfree of 0.284. The disulfide-constrained `core' of the molecule, amino-acid residues 1-15, has a main-chain conformation that is essentially the same as endothelin when bound to its receptor, but many side-chain rotamers are different. The carboxy-terminal `tail' comprising amino-acid residues 16-21 is extended as when receptor-bound, but it exhibits a different conformation with respect to the `core'. The dimer that comprises the asymmetric unit is maintained almost exclusively by hydrophobic interactions and may be stable in an aqueous medium.

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