7EL5

Crystal structure of Sizzled protein from Xenopus Laevis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.207 

wwPDB Validation   3D Report Full Report


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Literature

Dynamics of the secreted frizzled related protein Sizzled and potential implications for binding to bone morphogenetic protein-1 (BMP-1).

Sharma, U.Vadon-Le Goff, S.Harlos, K.Zhao, Y.Mariano, N.Bijakowski, C.Bourhis, J.M.Moali, C.Hulmes, D.J.S.Aghajari, N.

(2022) Sci Rep 12: 14850-14850

  • DOI: https://doi.org/10.1038/s41598-022-18795-4
  • Primary Citation of Related Structures:  
    7EL5

  • PubMed Abstract: 

    Sizzled (Szl) is both a secreted frizzled related protein (sFRP) and a naturally occurring inhibitor of the zinc metalloproteinase bone morphogenetic protein-1 (BMP-1), a key regulator of extracellular matrix assembly and growth factor activation. Here we present a new crystal structure for Szl which differs from that previously reported by a large scale (90°) hinge rotation between its cysteine-rich and netrin-like domains. We also present results of a molecular docking analysis showing interactions likely to be involved in the inhibition of BMP-1 activity by Szl. When compared with known structures of BMP-1 in complex with small molecule inhibitors, this reveals features that may be helpful in the design of new inhibitors to prevent the excessive accumulation of extracellular matrix that is the hallmark of fibrotic diseases.


  • Organizational Affiliation

    Molecular Microbiology and Structural Biochemistry, UMR 5086 CNRS-University of Lyon, 7 passage du Vercors, 69367, Lyon, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Secreted Xwnt8 inhibitor sizzled
A, B
275Xenopus laevisMutation(s): 0 
Gene Names: szl.Sszl
UniProt
Find proteins for A0A8J1MPX0 (Xenopus laevis)
Explore A0A8J1MPX0 
Go to UniProtKB:  A0A8J1MPX0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A8J1MPX0
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.207 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.88α = 90
b = 77.48β = 90
c = 107.49γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
xia2data reduction
XSCALEdata scaling
MOLREPphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agence Nationale de la Recherche (ANR)France2010-BLAN-1526-01

Revision History  (Full details and data files)

  • Version 1.0: 2022-09-14
    Type: Initial release