Download MendeleyX-ray crystal structure of a 4-hydroxythreonine-4-phosphate dehydrogenase from Burkholderia phymatum
Fairman, J.W., Clifton, M.C., Edwards, T.E., Lorimer, D.To be published.
4JQP
X-ray crystal structure of a 4-hydroxythreonine-4-phosphate dehydrogenase from Burkholderia phymatum
- PDB DOI: https://doi.org/10.2210/pdb4JQP/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Paraburkholderia phymatum STM815
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-03-20 Released: 2013-04-17
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.174
- R-Value Work: 0.148
- R-Value Observed: 0.149
wwPDB Validation 3D Report Full Report
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-hydroxythreonine-4-phosphate dehydrogenase | 342 | Paraburkholderia phymatum STM815 | Mutation(s): 0 Gene Names: pdxA EC: 1.1.1.262 |  | |
UniProt | |||||
Find proteins for B2JVC5 (Paraburkholderia phymatum (strain DSM 17167 / CIP 108236 / LMG 21445 / STM815)) Explore B2JVC5 Go to UniProtKB: B2JVC5 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | B2JVC5 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ZN Query on ZN | C [auth A], F [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | I [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CA Query on CA | E [auth A], H [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| MG Query on MG | D [auth A], G [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.174
- R-Value Work: 0.148
- R-Value Observed: 0.149
- Space Group: P 1 21 1
- Diffraction Data: https://doi.org/10.18430/M34JQP
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 48.98 | α = 90 |
| b = 99.28 | β = 93.92 |
| c = 71.03 | γ = 90 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| PHASER | phasing |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
Entry History
Deposition Data
- Released Date: 2013-04-17 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2013-04-17
Type: Initial release - Version 1.1: 2023-09-20
Changes: Data collection, Database references, Derived calculations, Refinement description
