7XB5

Structure of the ligand-binding domain of S. cerevisiae Upc2 in fusion with T4 lysozyme


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.44 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.260 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural basis for activation of fungal sterol receptor Upc2 and azole resistance.

Tan, L.Chen, L.Yang, H.Jin, B.Kim, G.Im, Y.J.

(2022) Nat Chem Biol 18: 1253-1262

  • DOI: https://doi.org/10.1038/s41589-022-01117-0
  • Primary Citation of Related Structures:  
    7VPR, 7VPS, 7VPT, 7VPU, 7XB5

  • PubMed Abstract: 

    Fungal transcription factor Upc2 senses ergosterol levels and regulates sterol biosynthesis and uptake. Constitutive activation of Upc2 causes azole resistance in Candida species. We determined the structure of ergosterol-bound Upc2, revealing the ligand specificity and transcriptional regulation. Ergosterol binding involves conformational changes of the ligand-binding domain, creating a shape-complementary hydrophobic pocket. The conserved helix α12 and glycine-rich loop are critical for sterol recognition by forming the pocket wall. The mutations of the glycine-rich loop inhibit ligand binding by steric clashes and constitutively activate Upc2. The translocation of Upc2 is regulated by Hsp90 chaperone in a sterol-dependent manner. Ergosterol-bound Upc2 associates with Hsp90 using the C-terminal tail, which retains the inactive Upc2 in the cytosol. Ergosterol dissociation induces a conformational change of the C-terminal tail, releasing Upc2 from Hsp90 for nuclear transport by importin α. The understanding of the regulatory mechanism provides an antifungal target for the treatment of azole-resistant Candida infections.


  • Organizational Affiliation

    College of Pharmacy, Chonnam National University, Gwangju, South Korea.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
fusion protein of Sterol uptake control protein 2 and Endolysin465Saccharomyces cerevisiae S288CTequatrovirus T4Mutation(s): 5 
Gene Names: UPC2MOX4YDR213WYD8142.14YD8142B.05
EC: 3.2.1.17
UniProt
Find proteins for Q12151 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q12151 
Go to UniProtKB:  Q12151
Find proteins for P00720 (Enterobacteria phage T4)
Explore P00720 
Go to UniProtKB:  P00720
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsP00720Q12151
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.44 Å
  • R-Value Free: 0.301 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.260 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.744α = 90
b = 125.085β = 90
c = 155.272γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation (NRF, Korea)Korea, Republic Of2019R1A2C1085530

Revision History  (Full details and data files)

  • Version 1.0: 2022-09-07
    Type: Initial release
  • Version 1.1: 2022-10-26
    Changes: Database references
  • Version 1.2: 2022-11-09
    Changes: Database references
  • Version 1.3: 2023-11-29
    Changes: Data collection, Refinement description