2J7X

STRUCTURE OF ESTRADIOL-BOUND ESTROGEN RECEPTOR BETA LBD IN COMPLEX WITH LXXLL MOTIF FROM NCOA5

• PDB DOI: https://doi.org/10.2210/pdb2J7X/pdb

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


• Deposited: 2006-10-17 Released: 2006-11-07 
• Deposition Author(s): Pike, A.C.W., Brzozowski, A.M., Hubbard, R.E., Walton, J., Bonn, T., Thorsell, A.-G., Engstrom, O., Ljunggren, J., Gustaffson, J.-A., Carlquist, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.234 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

Structure of Agonist-Bound Estrogen Receptor Beta Lbd in Complex with Lxxll Motif from Ncoa5

Pike, A.C.W., Brzozowski, A.M., Hubbard, R.E., Walton, J., Bonn, T., Thorsell, A.-G., Engstrom, O., Ljunggren, J., Gustaffson, J.-A., Carlquist, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 31.3 kDa 
• Atom Count: 2,014 
• Modelled Residue Count: 239 
• Deposited Residue Count: 272 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ESTROGEN RECEPTOR BETA	A	255	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for Q62986 (Rattus norvegicus) Explore Q62986  Go to UniProtKB:  Q62986

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
NUCLEAR RECEPTOR COACTIVATOR 5	B	17	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HCD5 (Homo sapiens) Explore Q9HCD5  Go to UniProtKB:  Q9HCD5
PHAROS:  Q9HCD5 GTEx:  ENSG00000124160

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EST	C [auth A]	ESTRADIOL C18 H24 O2 VOXZDWNPVJITMN-ZBRFXRBCSA-N
SO4	H [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	D [auth A], E [auth A], F [auth A], G [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
BCT	I [auth A]	BICARBONATE ION C H O3 BVKZGUZCCUSVTD-UHFFFAOYSA-M

Binding Affinity Annotations
ID	Source	Binding Affinity
EST	BindingDB:  2J7X	Ki: min: 0.01, max: 100 (nM) from 10 assay(s)
		Kd: min: 0.5, max: 7.9 (nM) from 3 assay(s)
		IC50: min: 1.00e-2, max: 24 (nM) from 37 assay(s)
		EC50: min: 1.00e-2, max: 30 (nM) from 44 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.234 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.55	α = 90
b = 62.55	β = 90
c = 171.7	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-11-07 
Deposition Author(s): Pike, A.C.W., Brzozowski, A.M., Hubbard, R.E., Walton, J., Bonn, T., Thorsell, A.-G., Engstrom, O., Ljunggren, J., Gustaffson, J.-A., Carlquist, M.

Revision History  

• Version 1.0: 2006-11-07
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Refinement description, Version format compliance
• Version 1.2: 2023-12-13
  Changes: Data collection, Database references, Other, Refinement description