1ZGY

Structural and Biochemical Basis for Selective Repression of the Orphan Nuclear Receptor LRH-1 by SHP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.231 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural and biochemical basis for selective repression of the orphan nuclear receptor liver receptor homolog 1 by small heterodimer partner.

Li, Y.Choi, M.Suino, K.Kovach, A.Daugherty, J.Kliewer, S.A.Xu, H.E.

(2005) Proc Natl Acad Sci U S A 102: 9505-9510

  • DOI: 10.1073/pnas.0501204102
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The functional interaction between the orphan nuclear receptors small heterodimer partner (SHP) and liver receptor homolog 1 (LRH-1), where SHP binds to LRH-1 and represses its constitutive transcriptional activity, is crucial for regulating genes in ...

    The functional interaction between the orphan nuclear receptors small heterodimer partner (SHP) and liver receptor homolog 1 (LRH-1), where SHP binds to LRH-1 and represses its constitutive transcriptional activity, is crucial for regulating genes involved in cholesterol homeostasis. Here, we report structural and biochemical analyses of the LRH-1/SHP interaction. The crystal structure and modeling studies of the LRH-1 ligand-binding domain bound to either of the two LXXLL-related motifs of SHP show that the receptor undergoes conformational changes to accommodate the SHP docking and reveal key residues that determine the potency and selectivity of SHP binding. Through a combination of mutagenesis and binding studies, we demonstrate that only the second SHP LXXLL motif is required for repressing LRH-1, and this motif displays a strong preference for binding to LRH-1 over the closely related receptor steroidogeneic factor 1 (SF-1). Structural comparisons indicate that this binding selectivity is determined by residues flanking the core LXXLL motifs. These results establish a structural model for understanding how SHP interacts with LRH-1 to regulate cholesterol homeostasis and provide new insights into how nuclear receptor/coregulator selectivity is achieved.


    Organizational Affiliation

    Laboratory of Structural Sciences, Van Andel Research Institute, 333 Bostwick Avenue, Grand Rapids, MI 49503, USA.



Macromolecules
  • Find similar proteins by: Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Nuclear receptor subfamily 0, group B, member 2
B
17Rattus norvegicusMutation(s): 0 
Gene Names: Nr0b2Shp
Find proteins for P97947 (Rattus norvegicus)
Go to UniProtKB:  P97947
Protein Feature View
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Peroxisome proliferator activated receptor gamma
A
272Homo sapiensMutation(s): 0 
Gene Names: PPARGNR1C3
Find proteins for P37231 (Homo sapiens)
Go to UniProtKB:  P37231
NIH Common Fund Data Resources
PHAROS  P37231
Protein Feature View
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BRL
Query on BRL

Download CCD File 
A
2,4-THIAZOLIDIINEDIONE, 5-[[4-[2-(METHYL-2-PYRIDINYLAMINO)ETHOXY]PHENYL]METHYL]-(9CL)
C18 H19 N3 O3 S
YASAKCUCGLMORW-HNNXBMFYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
BRLKi:  8   nM  BindingDB
BRLEC50:  1   nM  BindingDB
DRJKd:  684.7999877929688   nM  BindingDB
BRLEC50:  260   nM  BindingDB
BRLEC50:  316   nM  BindingDB
BRLEC50:  300   nM  BindingDB
BRLEC50:  326   nM  BindingDB
BRLEC50:  332   nM  BindingDB
BRLEC50:  52   nM  BindingDB
BRLEC50:  30   nM  BindingDB
DRJEC50:  70   nM  BindingDB
BRLIC50:  292   nM  BindingDB
BRLKi:  27   nM  BindingDB
DRJKd:  270   nM  BindingDB
BRLEC50:  39   nM  BindingDB
BRLEC50:  40   nM  BindingDB
BRLIC50:  1   nM  BindingDB
BRLEC50:  95   nM  BindingDB
BRLEC50:  89   nM  BindingDB
DRJEC50:  73.30000305175781   nM  BindingDB
BRLEC50:  117   nM  BindingDB
BRLEC50:  114   nM  BindingDB
BRLKd:  0.14000000059604645   nM  BindingDB
BRLKi:  47   nM  BindingDB
BRLEC50:  1100   nM  BindingDB
BRLIC50:  38   nM  BindingDB
BRLKd:  1.2000000476837158   nM  BindingDB
BRLEC50:  87   nM  BindingDB
DRJKi:  88   nM  BindingDB
BRLIC50:  500   nM  Binding MOAD
BRLIC50:  76   nM  BindingDB
BRLEC50:  10   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.231 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 102.602α = 90
b = 54.493β = 97.5
c = 66.497γ = 90
Software Package:
Software NamePurpose
CNSrefinement
MAR345data collection
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-07-26
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description