Download MendeleyPhosphotriesterase PTE_A53_4
Dym, O., Aggarwal, N., Albeck, S., Unger, T., Hamer Rogotner, S., Silman, I., Leader, H., Ashani, Y., Goldsmith, M., Greisen, P., Tawfik, D., Sussman, L.J.To be published.
6FQE
Phosphotriesterase PTE_A53_4
- PDB DOI: https://doi.org/10.2210/pdb6FQE/pdb
- Classification: HYDROLASE
- Organism(s): Brevundimonas diminuta
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2018-02-14 Released: 2019-03-13
- Funding Organization(s): DTRA
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 Å
- R-Value Free: 0.186
- R-Value Work: 0.160
- R-Value Observed: 0.161
Starting Model: experimental
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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 |
| Parathion hydrolase | 340 | Brevundimonas diminuta | Mutation(s): 0 Gene Names: opd EC: 3.1.8.1 |  | |
UniProt | |||||
Find proteins for P0A434 (Brevundimonas diminuta) Explore P0A434 Go to UniProtKB: P0A434 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0A434 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Parathion hydrolase | 340 | Brevundimonas diminuta | Mutation(s): 0 Gene Names: opd EC: 3.1.8.1 |  | |
UniProt | |||||
Find proteins for P0A434 (Brevundimonas diminuta) Explore P0A434 Go to UniProtKB: P0A434 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0A434 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| D6K (Subject of Investigation/LOI) Query on D6K | F [auth A], K [auth B] | (4~{S},6~{R})-2,2,6-trimethyl-1,3-dioxan-4-ol C7 H14 O3 YZGBOJCVSXYSKT-RITPCOANSA-N |  | ||
| PEG (Subject of Investigation/LOI) Query on PEG | G [auth A] | DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N |  | ||
| ZN Query on ZN | D [auth A], E [auth A], I [auth B], J [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| FMT Query on FMT | C [auth A], H [auth B] | FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 Å
- R-Value Free: 0.186
- R-Value Work: 0.160
- R-Value Observed: 0.161
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 54.55 | α = 90 |
| b = 81.3 | β = 94.96 |
| c = 70.61 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-3000 | data reduction |
| SCALEPACK | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2019-03-13 Deposition Author(s): Dym, O., Aggarwal, N., Albeck, S., Unger, T., Hamer Rogotner, S., Silman, I., Leader, H., Ashani, Y., Goldsmith, M., Greisen, P., Tawfik, D., Sussman, L.J.
| Funding Organization | Location | Grant Number |
|---|---|---|
| DTRA | United States | HDTRA1-11-C-0026). |
| DTRA | United States | CB10265 / HDTRA1724528 |
Revision History (Full details and data files)
- Version 1.0: 2019-03-13
Type: Initial release - Version 1.1: 2024-01-17
Changes: Data collection, Database references, Derived calculations, Refinement description
