Download MendeleyCrystal structure of Arabidopsis thaliana HPPD complexed with Y13508
Yang, W.C., Lin, H.Y.To be published.
5YWH
Crystal structure of Arabidopsis thaliana HPPD complexed with Y13508
- PDB DOI: https://doi.org/10.2210/pdb5YWH/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Arabidopsis thaliana
- Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
- Mutation(s): No
- Deposited: 2017-11-29 Released: 2019-01-16
- Funding Organization(s): National Science Foundation (China)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.72 Å
- R-Value Free: 0.296
- R-Value Work: 0.241
- R-Value Observed: 0.243
This is version 1.1 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 |
| 4-hydroxyphenylpyruvate dioxygenase | 445 | Arabidopsis thaliana | Mutation(s): 0 Gene Names: HPD, PDS1, At1g06570, F12K11.9 EC: 1.13.11.27 |  | |
UniProt | |||||
Find proteins for P93836 (Arabidopsis thaliana) Explore P93836 Go to UniProtKB: P93836 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P93836 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 92U Query on 92U | D [auth A], F [auth B] | [1,3-diethyl-2,2-bis(oxidanylidene)-2$l^{6},1,3-benzothiadiazol-5-yl]-(1-methyl-5-oxidanyl-pyrazol-4-yl)methanone C15 H18 N4 O4 S QVDQRUFZWCVKJE-UHFFFAOYSA-N |  | ||
| FE Query on FE | C [auth A], E [auth B] | FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.72 Å
- R-Value Free: 0.296
- R-Value Work: 0.241
- R-Value Observed: 0.243
- Space Group: P 41 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 95.745 | α = 90 |
| b = 95.745 | β = 90 |
| c = 196.595 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2019-01-16 Deposition Author(s): Yang, W.C., Lin, H.Y.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Science Foundation (China) | China | 21672079 |
Revision History (Full details and data files)
- Version 1.0: 2019-01-16
Type: Initial release - Version 1.1: 2023-11-22
Changes: Data collection, Database references, Derived calculations, Refinement description
