Download Mendeleystructure analysis of vitamin D receptor
Kashiwagi, H., Ohta, M., Ono, Y., Itoh, S., Iijima, S., Sato, H., Takahashi, T.To be published.
3W0C
Crystal Structure Analysis of Vitamin D receptor
- PDB DOI: https://doi.org/10.2210/pdb3W0C/pdb
- Classification: HORMONE RECEPTOR
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-10-29 Released: 2013-11-13
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.235
- R-Value Work: 0.199
- R-Value Observed: 0.201
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 |
| Vitamin D3 receptor | 253 | Homo sapiens | Mutation(s): 0 Gene Names: VDR, NR1I1 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P11473 (Homo sapiens) Explore P11473 Go to UniProtKB: P11473 | |||||
PHAROS: P11473 GTEx: ENSG00000111424 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P11473 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 6DS Query on 6DS | B [auth A] | (4S)-4-hydroxy-5-[2-methyl-4-(3-{3-methyl-4-[(1E)-4,4,4-trifluoro-3-hydroxy-3-(trifluoromethyl)but-1-en-1-yl]phenyl}pentan-3-yl)phenoxy]pentanoic acid C29 H34 F6 O5 BUDPSVAPFSMBAY-ZVQQDINOSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.235
- R-Value Work: 0.199
- R-Value Observed: 0.201
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 44.37 | α = 90 |
| b = 51.917 | β = 90 |
| c = 132.087 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MOSFLM | data reduction |
| SCALA | data scaling |
| BUSTER-TNT | refinement |
| PDB_EXTRACT | data extraction |
| CNX | phasing |
| BUSTER | refinement |
Entry History
Deposition Data
- Released Date: 2013-11-13 Deposition Author(s): Itoh, S., Iijima, S.
Revision History (Full details and data files)
- Version 1.0: 2013-11-13
Type: Initial release - Version 1.1: 2017-08-16
Changes: Refinement description, Source and taxonomy - Version 1.2: 2024-03-20
Changes: Data collection, Database references, Derived calculations
