structure of human ECE-1 complexed with phosphoramidon

Experimental Data Snapshot

  • Resolution: 2.38 Å
  • R-Value Free: 0.345 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.266 

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This is version 1.5 of the entry. See complete history


Structure of human endothelin-converting enzyme I complexed with phosphoramidon

Schulz, H.Dale, G.E.Karimi-Nejad, Y.Oefner, C.

(2009) J Mol Biol 385: 178-187

  • DOI: https://doi.org/10.1016/j.jmb.2008.10.052
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Endothelin-converting enzyme I (ECE-1) is a mammalian type II integral membrane zinc-containing endopeptidase. ECE-1 catalyzes the final step in the biosynthesis of endothelins in a rate-limiting fashion, through post-translational conversion of the biologically inactive big endothelins. Endothelin-1 overproduction has been implicated in a heterogeneous list of diseases including systemic and pulmonary hypertension, stroke and asthma, cardiac and renal failure. Therefore, ECE-1 is a prime therapeutic target for the regulation of endothelin-1 production in vivo and there is considerable interest in selective inhibitors of this enzyme. Here, we present the crystal structure of the extracellular domain (residues 90-770) of human ECE-1 (C428S) with the generic metalloprotease inhibitor phosphoramidon determined at 2.38 A resolution. The structure is closely related to that of human NEP, providing essential information for a detailed understanding of ligand-binding, specificity determinants as well as selectivity criteria. Selective inhibitors of ECE-1s should have beneficial effects for the treatment of diseases in which an overproduction of ETs plays a pathogenic role.

  • Organizational Affiliation

    Morphochem AG, Basel Switzerland.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Endothelin-converting enzyme 1670Homo sapiensMutation(s): 1 
Gene Names: ECE1
UniProt & NIH Common Fund Data Resources
Find proteins for P42892 (Homo sapiens)
Explore P42892 
Go to UniProtKB:  P42892
PHAROS:  P42892
GTEx:  ENSG00000117298 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP42892
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on RDF

Download Ideal Coordinates CCD File 
C23 H34 N3 O10 P
Query on 5HD

Download Ideal Coordinates CCD File 
C [auth A]5-(2-hydroxyethyl)nonane-1,9-diol
C11 H24 O3
Query on ZN

Download Ideal Coordinates CCD File 
B [auth A]ZINC ION
Binding Affinity Annotations 
IDSourceBinding Affinity
RDF BindingDB:  3DWB IC50: min: 0.8, max: 4000 (nM) from 9 assay(s)
Binding MOAD:  3DWB IC50: 650 (nM) from 1 assay(s)
PDBBind:  3DWB IC50: 650 (nM) from 1 assay(s)
Biologically Interesting Molecules (External Reference) 1 Unique
Experimental Data & Validation

Experimental Data

  • Resolution: 2.38 Å
  • R-Value Free: 0.345 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.266 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 120.88α = 90
b = 120.88β = 90
c = 192.346γ = 120
Software Package:
Software NamePurpose
HKL-2000data collection
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

  • Released Date: 2008-11-25 
  • Deposition Author(s): Oefner, C.

Revision History  (Full details and data files)

  • Version 1.0: 2008-11-25
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.2: 2012-12-12
    Changes: Other
  • Version 1.3: 2021-11-10
    Changes: Database references, Derived calculations
  • Version 1.4: 2023-11-01
    Changes: Data collection, Refinement description
  • Version 1.5: 2024-03-20
    Changes: Source and taxonomy