Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors.

Biological Assembly 5  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 5 generated by PISA (software)

Biological Assembly 6  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction | Predict Membrane 

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 6 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 226.25 kDa 
• Atom Count: 12978 
• Modelled Residue Count: 1682 
• Deposited Residue Count: 1928 
• Unique protein chains: 1

4AW6

Crystal structure of the human nuclear membrane zinc metalloprotease ZMPSTE24 (FACE1)

• PDB DOI: 10.2210/pdb4AW6/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2012-05-31 Released: 2012-07-25 
• Deposition Author(s): Pike, A.C.W., Dong, Y.Y., Quigley, A., Dong, L., Cooper, C.D.O., Chaikuad, A., Goubin, S., Shrestha, L., Li, Q., Mukhopadhyay, S., Yang, J., Xia, X., Shintre, C.A., Barr, A.J., Berridge, G., Chalk, R., Bray, J.E., von Delft, F., Bullock, A., Bountra, C., Arrowsmith, C.H., Edwards, A., Burgess-Brown, N., Carpenter, E.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.264 
• R-Value Work: 0.246 
• R-Value Observed: 0.247 

Literature

The Structural Basis of Zmpste24-Dependent Laminopathies.

Quigley, A., Dong, Y.Y., Pike, A.C.W., Dong, L., Shrestha, L., Berridge, G., Stansfeld, P.J., Sansom, M.S.P., Edwards, A.M., Bountra, C., von Delft, F., Bullock, A.N., Burgess-Brown, N.A., Carpenter, E.P.

(2013) Science 339: 1604

• PubMed: 23539603 
• DOI: 10.1126/science.1231513
• Primary Citation of Related Structures:  
  2YPT, 4AW6


• PubMed Abstract: 
  

Mutations in the nuclear membrane zinc metalloprotease ZMPSTE24 lead to diseases of lamin processing (laminopathies), such as the premature aging disease progeria and metabolic disorders. ZMPSTE24 processes prelamin A, a component of the nuclear lamina intermediate filaments, by cleaving it at two sites. Failure of this processing results in accumulation of farnesylated, membrane-associated prelamin A. The 3.4 angstrom crystal structure of human ZMPSTE24 has a seven transmembrane α-helical barrel structure, surrounding a large, water-filled, intramembrane chamber, capped by a zinc metalloprotease domain with the catalytic site facing into the chamber. The 3.8 angstrom structure of a complex with a CSIM tetrapeptide showed that the mode of binding of the substrate resembles that of an insect metalloprotease inhibitor in thermolysin. Laminopathy-associated mutations predicted to reduce ZMPSTE24 activity map to the zinc metalloprotease peptide-binding site and to the bottom of the chamber.

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Organizational Affiliation: 

Structural Genomics Consortium, University of Oxford, Oxford, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CAAX PRENYL PROTEASE 1 HOMOLOG	A, B, C [auth D], D [auth E]	482	Homo sapiens	Mutation(s): 1  Gene Names: ZMPSTE24, FACE1, STE24 EC: 3.4.24.84 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for O75844 (Homo sapiens) Explore O75844  Go to UniProtKB:  O75844
PHAROS:  O75844 GTEx:  ENSG00000084073

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PC1	F [auth A], H [auth B], J [auth D], L [auth E]	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE C44 H88 N O8 P NRJAVPSFFCBXDT-HUESYALOSA-N
ZN	E [auth A], G [auth B], I [auth D], K [auth E]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.264 
• R-Value Work: 0.246 
• R-Value Observed: 0.247 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.987	α = 76.73
b = 95.451	β = 79.64
c = 131.095	γ = 72.61

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
SHELXD	phasing
SOLVE	phasing
BUSTER-TNT	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-05-31 
• Released Date: 2012-07-25 
Deposition Author(s): Pike, A.C.W., Dong, Y.Y., Quigley, A., Dong, L., Cooper, C.D.O., Chaikuad, A., Goubin, S., Shrestha, L., Li, Q., Mukhopadhyay, S., Yang, J., Xia, X., Shintre, C.A., Barr, A.J., Berridge, G., Chalk, R., Bray, J.E., von Delft, F., Bullock, A., Bountra, C., Arrowsmith, C.H., Edwards, A., Burgess-Brown, N., Carpenter, E.P.

Revision History  

• Version 1.0: 2012-07-25
  Type: Initial release
  
• Version 1.1: 2012-12-05
  Changes: Database references, Structure summary
• Version 1.2: 2013-05-15
  Changes: Database references
• Version 1.3: 2018-01-24
  Changes: Database references