Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - AB Pseudo Symmetry: Cyclic - C2  (3D View)
Pseudo Stoichiometry: Homo 2-mer -A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 65517.86 
• Atom Count: 4197 
• Residue Count: 571 
• Unique protein chains: 3

1K74

The 2.3 Angstrom resolution crystal structure of the heterodimer of the human PPARgamma and RXRalpha ligand binding domains respectively bound with GW409544 and 9-cis retinoic acid and co-activator peptides.

• DOI: 10.2210/pdb1K74/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2001-10-18 Released: 2001-12-05 
• Deposition Author(s): Xu, H.E., Lambert, M.H., Montana, V.G., Moore, L.B., Collins, J.L., Oplinger, J.A., Kliewer, S.A., Gampe Jr., R.T., McKee, D.D., Moore, J.T., Willson, T.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.279 
• R-Value Work: 0.238 

Literature

Structural determinants of ligand binding selectivity between the peroxisome proliferator-activated receptors.

Xu, H.E., Lambert, M.H., Montana, V.G., Plunket, K.D., Moore, L.B., Collins, J.L., Oplinger, J.A., Kliewer, S.A., Gampe Jr., R.T., McKee, D.D., Moore, J.T., Willson, T.M.

(2001) Proc.Natl.Acad.Sci.USA 98: 13919-13924

• PubMed: 11698662 
• DOI: 10.1073/pnas.241410198
• Primary Citation of Related Structures:  
  1K7L
• Also Cited By: 3CDS, 3CDP, 3B3K


• PubMed Abstract: 
  

The peroxisome proliferator-activated receptors (PPARs) are transcriptional regulators of glucose, lipid, and cholesterol metabolism. We report the x-ray crystal structure of the ligand binding domain of PPAR alpha (NR1C1) as a complex with the agonist ligand GW409544 and a coactivator motif from the steroid receptor coactivator 1. Through comparison of the crystal structures of the ligand binding domains of the three human PPARs, we have identified molecular determinants of subtype selectivity. A single amino acid, which is tyrosine in PPAR alpha and histidine in PPAR gamma, imparts subtype selectivity for both thiazolidinedione and nonthiazolidinedione ligands. The availability of high-resolution cocrystal structures of the three PPAR subtypes will aid the design of drugs for the treatments of metabolic and cardiovascular diseases.

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Organizational Affiliation: 

Nuclear Receptor Discovery Research, GlaxoSmithKline, Research Triangle Park, NC 27709, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Retinoic acid receptor RXR-alpha	A	238	Homo sapiens	Mutation(s): 0  Gene Names: RXRA (NR2B1)
Find proteins for P19793 (Homo sapiens) Go to Gene View: RXRA Go to UniProtKB:  P19793

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Peroxisome proliferator activated receptor gamma	D	283	Homo sapiens	Mutation(s): 0  Gene Names: PPARG (NR1C3)
Find proteins for P37231 (Homo sapiens) Go to Gene View: PPARG Go to UniProtKB:  P37231

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
steroid receptor coactivator	B, E	25	Homo sapiens	Mutation(s): 0  Gene Names: NCOA1 (BHLHE74, SRC1) EC: 2.3.1.48
Find proteins for Q15788 (Homo sapiens) Go to Gene View: NCOA1 Go to UniProtKB:  Q15788

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
544	D	2-(1-METHYL-3-OXO-3-PHENYL-PROPYLAMINO)-3-{4-[2-(5-METHYL-2-PHENYL-OXAZOL-4-YL)-ETHOXY]-PHENYL}-PROPIONIC ACID GW409544 C31 H30 N2 O5 GGUVRMBIEPYOKL-WMVCGJOFSA-N
9CR	A	(9cis)-retinoic acid C20 H28 O2 SHGAZHPCJJPHSC-ZVCIMWCZSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
9CR	IC50: 4 - 82 nM (86) BINDINGDB
9CR	Ki: 3.8 - 27 nM (87) BINDINGDB
9CR	Kd: 1.5 - 1810 nM (100) BINDINGDB
9CR	EC50: 1.5 - 316 nM (100) BINDINGDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Free: 0.279 
• R-Value Work: 0.238 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 46.620	α = 90.00
b = 55.100	β = 90.00
c = 214.860	γ = 90.00

Software Package:

Software Name	Purpose
HKL-2000	data scaling
MAR	data reduction
AMoRE	phasing
CNX	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-10-18 
• Released Date: 2001-12-05 
• Deposition Author(s): Xu, H.E., Lambert, M.H., Montana, V.G., Moore, L.B., Collins, J.L., Oplinger, J.A., Kliewer, S.A., Gampe Jr., R.T., McKee, D.D., Moore, J.T., Willson, T.M.

Revision History 

• Version 1.0: 2001-12-05
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2012-12-26
  Type: Non-polymer description