Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 28605.62 
• Atom Count: 1897 
• Residue Count: 192 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

2C7A

STRUCTURE OF THE PROGESTERONE RECEPTOR-DNA COMPLEX

• DOI: 10.2210/pdb2C7A/pdb
• NDB: PD0863

• Classification: RECEPTOR/DNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2005-11-19 Released: 2006-08-30 
• Deposition Author(s): Roemer, S.C., Donham, D.C., Sherman, L., Pon, V.H., Edwards, D.P., Churchill, M.E.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.246 
• R-Value Work: 0.198 

Literature

Structure of the Progesterone Receptor-Deoxyribonucleic Acid Complex: Novel Interactions Required for Binding to Half-Site Response Elements.

Roemer, S.C., Donham, D.C., Sherman, L., Pon, V.H., Edwards, D.P., Churchill, M.E.A.

(2006) Mol.Endocrinol. 20: 3042

• PubMed: 16931575 
• DOI: 10.1210/me.2005-0511


• PubMed Abstract: 
  

The DNA binding domain (DBD) of nuclear hormone receptors contains a highly conserved globular domain and a less conserved carboxyl-terminal extension (CTE). Despite previous observations that the CTEs of some classes of nuclear receptors are structured and interact with DNA outside of the hexanucleotide hormone response element (HRE), there has been no evidence for such a CTE among the steroid receptors. We have determined the structure of the progesterone receptor (PR)-DBD-CTE DNA complex at a resolution of 2.5 A, which revealed binding of the CTE to the minor groove flanking the HREs. Alanine substitutions of the interacting CTE residues reduced affinity for inverted repeat HREs separated by three nucleotides, and essentially abrogated binding to a single HRE. A highly compressed minor groove of the trinucleotide spacer and a novel dimerization interface were also observed. A PR binding site selection experiment revealed sequence preferences in the trinucleotide spacer and flanking DNA. These results, taken together, support the notion that sequences outside of the HREs influence the DNA binding affinity and specificity of steroid receptors.

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Organizational Affiliation: 

Program in Molecular Biology, Department of Pharmacology, University of Colorado at Denver and Health Sciences Center, Aurora, Colorado 80045, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PROGESTERONE RECEPTOR	A, B	78	Homo sapiens	Mutation(s): 0  Gene Names: PGR (NR3C3)
Find proteins for P06401 (Homo sapiens) Go to Gene View: PGR Go to UniProtKB:  P06401

Entity ID: 2
Molecule	Chains	Length	Organism
5'-D(*CP*CP*AP*GP*AP*AP*CP*AP*GP*TP *TP*TP*GP*TP*TP*CP*TP*G)-3'	C	18	Homo sapiens

Entity ID: 3
Molecule	Chains	Length	Organism
5'-D(*CP*CP*AP*GP*AP*AP*CP*AP*AP*AP *CP*TP*GP*TP*TP*CP*TP*G)-3'	D	18	Homo sapiens

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A, B	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Free: 0.246 
• R-Value Work: 0.198 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 39.530	α = 90.00
b = 107.850	β = 90.00
c = 111.960	γ = 90.00

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-11-19 
• Released Date: 2006-08-30 
• Deposition Author(s): Roemer, S.C., Donham, D.C., Sherman, L., Pon, V.H., Edwards, D.P., Churchill, M.E.A.

Revision History 

• Version 1.0: 2006-08-30
  Type: Initial release
• Version 1.1: 2011-05-08
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance