- FASTA Sequence
- PDBx/mmCIF Format
- PDBx/mmCIF Format (gz)
- BinaryCIF Format (gz)
- Legacy PDB Format
- Legacy PDB Format (gz)
- PDBML/XML Format (gz)
- Structure Factors (CIF)
- Structure Factors (CIF - gz)
- Validation Full (PDF - gz)
- Validation (XML - gz)
- Validation (CIF - gz)
- Validation 2fo-fc coefficients (CIF - gz)
- Validation fo-fc coefficients (CIF - gz)
- Biological Assembly 1 (CIF - gz)
- Biological Assembly 2 (CIF - gz)
- Biological Assembly 1 (PDB - gz)
- Biological Assembly 2 (PDB - gz)
4E2J | pdb_00004e2j
X-Ray Crystal Structure of the Ancestral Glucocorticoid Receptor 2 ligand binding domain in complex with mometasone furoate and TIF-2 coactivator fragment
- PDB DOI: https://doi.org/10.2210/pdb4E2J/pdb
- Classification: HORMONE/HORMONE ACTIVATOR
- Organism(s): synthetic construct, Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-03-08 Released: 2012-03-28
- Deposition Author(s): Kohn, J.A., Deshpande, K., Ortlund, E.A.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.255 (Depositor), 0.250 (DCC)
- R-Value Work: 0.205 (Depositor), 0.200 (DCC)
- R-Value Observed: 0.207 (Depositor)
Starting Model: experimental
View more details
- 👁 Image
Download Mendeley
Deciphering Modern Glucocorticoid Cross-pharmacology Using Ancestral Corticosteroid Receptors.
Kohn, J.A., Deshpande, K., Ortlund, E.A.(2012) J Biological Chem 287: 16267-16275
- PubMed: 22437833 Search on PubMedSearch on PubMed Central
- DOI: https://doi.org/10.1074/jbc.M112.346411
- Primary Citation Related Structures:
4E2J - PubMed Abstract:
Steroid receptors (SRs) are the largest family of metazoan transcription factors and control genes involved in development, endocrine signaling, reproduction, immunity, and cancer. The entire hormone receptor system is driven by a molecular switch triggered by the binding of small lipophilic ligands. This makes the SRs ideal pharmaceutical targets, yet even the best clinically approved synthetic steroidal agonists are prone to cross-reactivity and off-target pharmacology. The mechanism underlying this promiscuity is derived from the fact that SRs share common structural features derived from their evolutionary relationship. More often than not, rational attempts to probe SR drug selectivity via mutagenesis fail even when high quality structural and functional data are available due to the fact that important mutations often result in nonfunctional receptors. This highlights the fact that SRs suffer from instability, preventing in-depth mutational analysis and hampering crystallization of key receptor-ligand complexes. We have taken a unique approach to address this problem by using a resurrected ancestral protein to determine the structure of a previously intractable complex and identified the structural mechanisms that confer activation and selectivity for a widely used glucocorticoid, mometasone furoate. Moreover, we have identified a single residue located outside of the ligand-binding pocket that controls mometasone furoate antagonism versus agonism in the human mineralocorticoid receptor.
- Department of Biochemistry and the Discovery and Developmental Therapeutics Program, Winship Cancer Institute, Emory University School of Medicine, Atlanta, Georgia 30322, USA.
Organizational Affiliation:
Explore in 3D: Structure | Sequence Annotations | Electron Density | Validation Report | Ligand Interaction (MOF)
Explore in 3D: Structure | Sequence Annotations | Electron Density | Validation Report | Ligand Interaction (MOF)
Global Symmetry: Asymmetric - C1
Global Stoichiometry: Hetero 2-mer - A1B1
Find Similar Assemblies
Biological assembly 1 assigned by authors and generated by PISA (software)
Explore in 3D: Structure | Sequence Annotations | Electron Density | Validation Report | Ligand Interaction (MOF)
Global Symmetry: Asymmetric - C1
Global Stoichiometry: Hetero 2-mer - A1B1
Find Similar Assemblies
Biological assembly 2 assigned by authors and generated by PISA (software)
Macromolecule Content
- Total Structure Weight: 61.75 kDa
- Atom Count: 4,431
- Modeled Residue Count: 516
- Deposited Residue Count: 524
- Unique protein chains: 2
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Ancestral Glucocorticoid Receptor 2 | 250 | synthetic construct | Mutation(s): 0 | 👁 Image | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Nuclear receptor coactivator 2 | C, D [auth E] | 12 | Homo sapiens | Mutation(s): 0 | 👁 Image |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15596 (Homo sapiens) Explore Q15596 Go to UniProtKB: Q15596 | |||||
PHAROS: Q15596 GTEx: ENSG00000140396 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q15596 | ||||
Sequence AnnotationsExpand | |||||
| |||||
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MOF Query on MOF Download Ideal Coordinates CCD File | F [auth A], G [auth B] | MOMETASONE FUROATE C27 H30 Cl2 O6 WOFMFGQZHJDGCX-ZULDAHANSA-N | 👁 Image | ||
| GOL Query on GOL Download Ideal Coordinates CCD File | E [auth A], I [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | 👁 Image | ||
| FMT Query on FMT Download Ideal Coordinates CCD File | H [auth B] | FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N | 👁 Image | ||
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.255 (Depositor), 0.250 (DCC)
- R-Value Work: 0.205 (Depositor), 0.200 (DCC)
- R-Value Observed: 0.207 (Depositor)
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 104.356 | α = 90 |
| b = 104.356 | β = 90 |
| c = 143.925 | γ = 120 |
| Software Name | Purpose |
|---|---|
| SERGUI | data collection |
| PHASER | phasing |
| REFMAC | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Deposition Data
- Released Date: 2012-03-28 Deposition Author(s): Kohn, J.A., Deshpande, K., Ortlund, E.A.
Revision History (Full details and data files)
- Version 1.0: 2012-03-28
Type: Initial release - Version 1.1: 2012-05-30
Changes: Database references - Version 1.2: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
