Download MendeleyStructure of a putative phosphomethylpyrimidine kinase from Acinetobacter baumannii in non-covalent complex with pyridoxal phosphate.
Abendroth, J., Dranow, D.M., Lorimer, D.D., Edwards, T.E.To be published.
4YWR
Structure of a putative phosphomethylpyrimidine kinase from Acinetobacter baumannii in non-covalent complex with pyridoxal phosphate
- PDB DOI: https://doi.org/10.2210/pdb4YWR/pdb
- Classification: TRANSFERASE
- Organism(s): Acinetobacter baumannii AB5075
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2015-03-20 Released: 2016-03-02
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.176
- R-Value Work: 0.157
- R-Value Observed: 0.158
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 |
| Putative hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase | 263 | Acinetobacter baumannii AB5075 | Mutation(s): 0 Gene Names: A591_A3049 |  | |
UniProt | |||||
Find proteins for A0A0J9X285 (Acinetobacter baumannii IS-123) Explore A0A0J9X285 Go to UniProtKB: A0A0J9X285 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0J9X285 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PLP Query on PLP | B [auth A] | PYRIDOXAL-5'-PHOSPHATE C8 H10 N O6 P NGVDGCNFYWLIFO-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.176
- R-Value Work: 0.157
- R-Value Observed: 0.158
- Space Group: C 2 2 21
- Diffraction Data: https://doi.org/10.18430/M34YWR
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 58.82 | α = 90 |
| b = 108.1 | β = 90 |
| c = 88.88 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
| Coot | model building |
| PDB_EXTRACT | data extraction |
Entry History
Deposition Data
- Released Date: 2016-03-02 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2016-03-02
Type: Initial release - Version 1.1: 2023-09-27
Changes: Data collection, Database references, Derived calculations, Refinement description
