Download MendeleyCrystal structure of complex of 4PAL (4-Pyridoxolactone) and PLDH (tetrameric pyridoxal 4-dehydrogenase) from Mesorhizobium loti
Yagi, T., Chu, H.N.To be published.
3RWB
Crystal structure of complex of 4PAL (4-Pyridoxolactone) and PLDH (tetrameric pyridoxal 4-dehydrogenase) from Mesorhizobium loti
- PDB DOI: https://doi.org/10.2210/pdb3RWB/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Mesorhizobium loti
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2011-05-08 Released: 2012-05-09
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.166
- R-Value Work: 0.135
- R-Value Observed: 0.137
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Pyridoxal 4-dehydrogenase | 247 | Mesorhizobium loti | Mutation(s): 0 Gene Names: mlr6807, pldh-t EC: 1.1.1.107 |  | |
UniProt | |||||
Find proteins for Q988B7 (Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / MAFF 303099)) Explore Q988B7 Go to UniProtKB: Q988B7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q988B7 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAD Query on NAD | E [auth A], J [auth B], L [auth C], O [auth D] | NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N |  | ||
| 4PL Query on 4PL | F [auth A], K [auth B], M [auth C], P [auth D] | 7-hydroxy-6-methylfuro[3,4-c]pyridin-1(3H)-one C8 H7 N O3 HHPDVQLBYQFYFA-UHFFFAOYSA-N |  | ||
| GOL Query on GOL | G [auth A], H [auth A], I [auth A], N [auth C], Q [auth D] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.70 Å
- R-Value Free: 0.166
- R-Value Work: 0.135
- R-Value Observed: 0.137
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 85.537 | α = 90 |
| b = 50.211 | β = 90.47 |
| c = 94.266 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| PHASES | phasing |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2012-05-09 Deposition Author(s): Chu, H.N.
Revision History (Full details and data files)
- Version 1.0: 2012-05-09
Type: Initial release - Version 1.1: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description
