Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 31.33 kDa 
• Atom Count: 2174 
• Residue Count: 263 
• Unique protein chains: 1

3HZF

Structure of TR-alfa bound to selective thyromimetic GC-1 in C2 space group

• DOI: 10.2210/pdb3HZF/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-06-23 Released: 2009-07-21 
• Deposition Author(s): Aparicio, R., Bleicher, L., Polikarpov, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.263 
• R-Value Work: 0.188 
• R-Value Observed: 0.192 

Literature

Structural basis of GC-1 selectivity for thyroid hormone receptor isoforms.

Bleicher, L., Aparicio, R., Nunes, F.M., Martinez, L., Gomes Dias, S.M., Figueira, A.C., Santos, M.A., Venturelli, W.H., da Silva, R., Donate, P.M., Neves, F.A., Simeoni, L.A., Baxter, J.D., Webb, P., Skaf, M.S., Polikarpov, I.

(2008) BMC Struct Biol 8: 8-8

• PubMed: 18237438 
• DOI: 10.1186/1472-6807-8-8
• Primary Citation of Related Structures:  
  3HZF, 3ILZ, 3IMY


• PubMed Abstract: 
  

Thyroid receptors, TRalpha and TRbeta, are involved in important physiological functions such as metabolism, cholesterol level and heart activities. Whereas metabolism increase and cholesterol level lowering could be achieved by TRbeta isoform activation, TRalpha activation affects heart rates. Therefore, beta-selective thyromimetics have been developed as promising drug-candidates for treatment of obesity and elevated cholesterol level. GC-1 [3,5-dimethyl-4-(4'-hydroxy-3'-isopropylbenzyl)-phenoxy acetic acid] has ability to lower LDL cholesterol with 600- to 1400-fold more potency and approximately two- to threefold more efficacy than atorvastatin (Lipitor(c)) in studies in rats, mice and monkeys.

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Organizational Affiliation: 

Instituto de Física de São Carlos, Universidade de São Paulo, Avenida Trabalhador São Carlense, 400 CEP 13560-970 São Carlos, SP, Brazil. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thyroid hormone receptor, alpha isoform 1 variant	A	269	Homo sapiens	Mutation(s): 0  Gene Names: THRA, EAR7, ERBA1, NR1A1, THRA1, THRA2
Find proteins for P10827 (Homo sapiens) Explore P10827  Go to UniProtKB:  P10827
NIH Common Fund Data Resources
PHAROS:  P10827 GTEx:  ENSG00000126351

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
B72	A	{4-[4-hydroxy-3-(1-methylethyl)benzyl]-3,5-dimethylphenoxy}acetic acid C20 H24 O4 QNAZTOHXCZPOSA-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CAS	A	L-PEPTIDE LINKING	C5 H12 As N O2 S		CYS

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
B72	Kd:  0.6600000262260437   nM  BindingDB
B72	Kd:  0.4399999976158142   nM  BindingDB
B72	Ki:  1.090000033378601   nM  BindingDB
B72	EC50:  45   nM  BindingDB
B72	Kd:  2.5   nM  BindingDB
B72	EC50:  74.69999694824219   nM  BindingDB
B72	EC50:  3   nM  BindingDB
B72	Kd:  1.7999999523162842   nM  BindingDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.263 
• R-Value Work: 0.188 
• R-Value Observed: 0.192 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 89.799	α = 90
b = 78.777	β = 95.17
c = 43.071	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
AMoRE	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-06-23 
• Released Date: 2009-07-21 
Deposition Author(s): Aparicio, R., Bleicher, L., Polikarpov, I.

Revision History 

• Version 1.0: 2009-07-21
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance