6Y20

Crystal structure of Protein Scalloped (222-440) bound to Protein Vestigial (298-337)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.189 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

A new perspective on the interaction between the Vg/VGLL1-3 proteins and the TEAD transcription factors.

Mesrouze, Y.Aguilar, G.Bokhovchuk, F.Martin, T.Delaunay, C.Villard, F.Meyerhofer, M.Zimmermann, C.Fontana, P.Wille, R.Vorherr, T.Erdmann, D.Furet, P.Scheufler, C.Schmelzle, T.Affolter, M.Chene, P.

(2020) Sci Rep 10: 17442-17442

  • DOI: 10.1038/s41598-020-74584-x
  • Primary Citation of Related Structures:  
    6Y20

  • PubMed Abstract: 
  • The most downstream elements of the Hippo pathway, the TEAD transcription factors, are regulated by several cofactors, such as Vg/VGLL1-3. Earlier findings on human VGLL1 and here on human VGLL3 show that these proteins interact with TEAD via a conserved amino acid motif called the TONDU domain ...

    The most downstream elements of the Hippo pathway, the TEAD transcription factors, are regulated by several cofactors, such as Vg/VGLL1-3. Earlier findings on human VGLL1 and here on human VGLL3 show that these proteins interact with TEAD via a conserved amino acid motif called the TONDU domain. Surprisingly, our studies reveal that the TEAD-binding domain of Drosophila Vg and of human VGLL2 is more complex and contains an additional structural element, an Ω-loop, that contributes to TEAD binding. To explain this unexpected structural difference between proteins from the same family, we propose that, after the genome-wide duplications at the origin of vertebrates, the Ω-loop present in an ancestral VGLL gene has been lost in some VGLL variants. These findings illustrate how structural and functional constraints can guide the evolution of transcriptional cofactors to preserve their ability to compete with other cofactors for binding to transcription factors.


    Organizational Affiliation

    Disease Area Oncology, Novartis Institutes for Biomedical Research, Novartis, WSJ 386 4.02.01, 4002, Basel, Switzerland. patrick_chene@yahoo.com.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Protein scallopedA219Drosophila melanogasterMutation(s): 0 
Gene Names: sdCG8544
UniProt
Find proteins for P30052 (Drosophila melanogaster)
Explore P30052 
Go to UniProtKB:  P30052
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Protein scallopedB219Drosophila melanogasterMutation(s): 0 
Gene Names: sdCG8544
UniProt
Find proteins for P30052 (Drosophila melanogaster)
Explore P30052 
Go to UniProtKB:  P30052
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Protein vestigialC, D41Drosophila melanogasterMutation(s): 1 
Gene Names: vgCG3830
UniProt
Find proteins for Q26366 (Drosophila melanogaster)
Explore Q26366 
Go to UniProtKB:  Q26366
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MYR (Subject of Investigation/LOI)
Query on MYR

Download Ideal Coordinates CCD File 
E [auth B]MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
 Ligand Interaction
NH2
Query on NH2

Download Ideal Coordinates CCD File 
F [auth C], G [auth D]AMINO GROUP
H2 N
QGZKDVFQNNGYKY-UHFFFAOYAF
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MYK
Query on MYK
AL-PEPTIDE LINKINGC20 H40 N2 O3LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.189 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 48.23α = 90
b = 62.039β = 90
c = 156.887γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
autoPROCdata reduction
STARANISOdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-10-21
    Type: Initial release
  • Version 1.1: 2020-10-28
    Changes: Database references