Download MendeleyCrystal structure of dimeric RXRalpha-LBD complexed with partial agonist CBt-PMN and SRC1
Shimizu, K., Numoto, N., Nakano, S., Makishima, M., Kakuta, H., Ito, N.To be published.
6L6K
Crystal structure of dimeric RXRalpha-LBD complexed with partial agonist CBt-PMN and SRC1
- PDB DOI: https://doi.org/10.2210/pdb6L6K/pdb
- Classification: TRANSCRIPTION
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2019-10-29 Released: 2020-11-04
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.211
- R-Value Work: 0.182
- R-Value Observed: 0.184
Starting Model: experimental
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This is version 1.2 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Retinoic acid receptor RXR-alpha | 243 | Homo sapiens | Mutation(s): 0 Gene Names: RXRA, NR2B1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P19793 (Homo sapiens) Explore P19793 Go to UniProtKB: P19793 | |||||
PHAROS: P19793 GTEx: ENSG00000186350 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P19793 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by: Sequence | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Nuclear receptor coactivator 1 | 12 | Homo sapiens | Mutation(s): 0 EC: 2.3.1.48 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15788 (Homo sapiens) Explore Q15788 Go to UniProtKB: Q15788 | |||||
PHAROS: Q15788 GTEx: ENSG00000084676 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q15788 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 9HF (Subject of Investigation/LOI) Query on 9HF | C [auth A] | 1-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)benzotriazole-5-carboxylic acid C22 H25 N3 O2 QSRQAKVNYDAVIT-UHFFFAOYSA-N |  | ||
| CA Query on CA | D [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.211
- R-Value Work: 0.182
- R-Value Observed: 0.184
- Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 67.837 | α = 90 |
| b = 67.837 | β = 90 |
| c = 105.153 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XDS | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2020-11-04 Deposition Author(s): Shimizu, K., Numoto, N., Nakano, S., Makishima, M., Kakuta, H., Ito, N.
Revision History (Full details and data files)
- Version 1.0: 2020-11-04
Type: Initial release - Version 1.1: 2022-08-17
Changes: Database references, Derived calculations - Version 1.2: 2023-11-22
Changes: Data collection, Refinement description
