Download MendeleyCrystal structure of NAD-dependent dehydrogenase/carboxylase of Salmonella typhimurium
Osipiuk, J., Quartey, P., Moy, S., Collart, F., Joachimiak, A.To be published.
1R8K | pdb_00001r8k
PDXA PROTEIN; NAD-DEPENDENT DEHYDROGENASE/CARBOXYLASE; SUBUNIT OF PYRIDOXINE PHOSPHATE BIOSYNTHETIC PROTEIN PDXJ-PDXA [SALMONELLA TYPHIMURIUM]
- PDB DOI: https://doi.org/10.2210/pdb1R8K/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2003-10-27 Released: 2003-11-11
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.234 (Depositor), 0.202 (DCC)
- R-Value Work: 0.208 (Depositor), 0.202 (DCC)
wwPDB Validation 3D Report Full Report
This is version 1.3 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 1 | 329 | Salmonella enterica subsp. enterica serovar Typhimurium | Mutation(s): 7 Gene Names: PDXA, STM0090 EC: 1.1.1.262 |  | |
UniProt | |||||
Find proteins for P58717 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore P58717 Go to UniProtKB: P58717 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P58717 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | E [auth A], F [auth A], H [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| CO Query on CO | C [auth A], G [auth B] | COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N |  | ||
| CL Query on CL | D [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.234 (Depositor), 0.202 (DCC)
- R-Value Work: 0.208 (Depositor), 0.202 (DCC)
Space Group: P 41
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 119.954 | α = 90 |
| b = 119.954 | β = 90 |
| c = 55.541 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| HKL-2000 | data reduction |
| SCALEPACK | data scaling |
| SHARP | phasing |
Entry History
Deposition Data
- Released Date: 2003-11-11 Deposition Author(s): Osipiuk, J., Quartey, P., Moy, S., Collart, F., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
Revision History (Full details and data files)
- Version 1.0: 2003-11-11
Type: Initial release - Version 1.1: 2008-04-29
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2024-10-09
Changes: Data collection, Database references, Derived calculations, Structure summary
