Download MendeleyCrystal structure of the hexameric thioesterase y2039 from Yersinia pestis
Swarbrick, C.M.D., Forwood, J.K.To be published.
5DM5
Crystal structure of the hexameric thioesterase y2039 from Yersinia pestis
- PDB DOI: https://doi.org/10.2210/pdb5DM5/pdb
- Classification: HYDROLASE
- Organism(s): Yersinia pestis
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2015-09-08 Released: 2015-11-11
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.262
- R-Value Work: 0.227
- R-Value Observed: 0.230
wwPDB Validation 3D Report Full Report
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 |
| Putative acyl-CoA thioester hydrolase | 152 | Yersinia pestis | Mutation(s): 0 Gene Names: y2039, YPO2195 EC: 3.1.2 |  | |
UniProt | |||||
Find proteins for A0A5P8YGN6 (Yersinia pestis) Explore A0A5P8YGN6 Go to UniProtKB: A0A5P8YGN6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A5P8YGN6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PGE Query on PGE | H [auth B], I [auth C], J [auth D] | TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N |  | ||
| GOL Query on GOL | G [auth A], K [auth E] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.262
- R-Value Work: 0.227
- R-Value Observed: 0.230
- Space Group: P 65
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 77.87 | α = 90 |
| b = 77.87 | β = 90 |
| c = 285.26 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| Aimless | data scaling |
| PHASER | phasing |
| MOSFLM | data reduction |
Entry History
Deposition Data
- Released Date: 2015-11-11 Deposition Author(s): Swarbrick, C.M.D., Forwood, J.K.
Revision History (Full details and data files)
- Version 1.0: 2015-11-11
Type: Initial release - Version 1.1: 2017-08-23
Changes: Data collection, Derived calculations - Version 1.2: 2023-09-27
Changes: Data collection, Database references, Refinement description
