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Crystal Structure of a new rexinoid bound to the RXRalpha ligand binding doamin in the RXRalpha/PPARgamma heterodimer
1RDT
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hormone/growth Factor
    Structure Weight: 65772.68
    Molecule: Retinoic acid receptor RXR-alpha
    Polymer: 1 Type: protein Length: 242
    Chains: A
    Fragment: ligand binding doamin
    Organism: Homo sapiens
    Gene Names: Gene View for RXRA NR2B1
    UniProtKB: Protein Feature View | Search PDB | P19793  
    Molecule: LxxLL motif coactivator
    Polymer: 2 Type: protein Length: 25
    Chains: B
    EC#: 2.3.1.48   
    Fragment: LxxLL peptide
    Organism: Homo sapiens
    Gene Names: Gene View for NCOA1 BHLHE74 SRC1
    UniProtKB: Protein Feature View | Search PDB | Q15788  
    Molecule: Peroxisome proliferator activated receptor gamma
    Polymer: 3 Type: protein Length: 284
    Chains: D
    Fragment: ligand binding doamin
    Organism: Homo sapiens
    Gene Names: Gene View for PPARG NR1C3
    UniProtKB: Protein Feature View | Search PDB | P37231  
    Molecule: LxxLL motif coactivator
    Polymer: 4 Type: protein Length: 23
    Chains: E
    EC#: 2.3.1.48   
    Fragment: LxxLL peptide
    Organism: Homo sapiens
    Gene Names: Gene View for CREBBP CBP
    UniProtKB: Protein Feature View | Search PDB | Q92793  
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli bl21(de3)  
    Polymer: 2
    Scientific Name: Synthetic construct (Homo sapiens)   Taxonomy    
    Polymer: 3
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli bl21(de3)  
    Polymer: 4
    Scientific Name: Synthetic construct (Homo sapiens)   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    1FM6  The 2.1A crystal structure of 9cis retinoic acid and rosiglitazone respectively bound to the RXRalpha / PPARgamma heterodimer coactivated with SRC1(2) peptides 
    1FM9  The 2.1A crystal structure of 9cis retinoic acid and GI262570 respectively bound to the RXRalpha / PPARgamma heterodimer coactivated with SRC1(2) peptides 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    570
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    570 C34 H30 N2 O5
    2-(2-BENZOYL-PHENYLAMINO)-3-{4-[2-(5-METHYL- 2-PHENYL-OXAZOL-4-YL)-ETHOXY]-PHENYL}-PROPIONIC ACID
    570:1RDT
    L79
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    L79 C25 H30 O3
    (S)-(2E)-3[4-(5,5,8,8-TETRAMETHYL-5,6,7,8- TETRAHYDRO-2-NAPHTHALENYL)TETRAHYDRO-1-BENZOFURAN- 2-YL]-2-PROPENOIC ACID
    L79:1RDT
     
  •   External Ligand Annotations Hide
    Identifier   Binding Affinity (Sequence Identity %)
    570
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    570
    EC50: 0.339 - 6 nM (98 - 100) - data from BindingDB  
    IC50: 25 - 217 nM (100) - data from BindingDB  
    Ki: 1.1 nM (100) - data from BindingDB  
    N/Ain BindingMoad
    N/Ain PDBbind
    L79
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    L79
    N/Ain BindingDB
    Ki: 6 nM - data from BindingMOAD  
    N/Ain PDBbind
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Biological assembly 1 assigned by authors
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