Download MendeleyThe crystal structure of a glyoxalase/bleomycin resistance protein/dioxygenase protein from Planctomyces limnophilus dsm 3776
Wu, R., Bearden, J., Kim, Y., Joachimiak, A.To be published.
4RT5
The crystal structure of a glyoxalase/bleomycin resistance protein/dioxygenase protein from planctomyces limnophilus dsm 3776
- DOI: 10.2210/pdb4RT5/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Planctopirus limnophila DSM 3776
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2014-11-13 Released: 2014-12-03
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.50 Å
- R-Value Free: 0.180
- R-Value Work: 0.151
- R-Value Observed: 0.153
wwPDB Validation 3D Report Full Report
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Glyoxalase/bleomycin resistance protein/dioxygenase | A, B | 114 | Planctopirus limnophila DSM 3776 | Mutation(s): 0 Gene Names: Plim_1428 EC: 4.4.1.5 |  |
Find proteins for D5SVJ2 (Planctopirus limnophila (strain ATCC 43296 / DSM 3776 / IFAM 1008 / 290)) Explore D5SVJ2 Go to UniProtKB: D5SVJ2 | |||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| TRS Query on TRS | A, B | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O |  | Ligand Interaction | |
| GOL Query on GOL | B | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
| NI Query on NI | A, B | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N |  | Ligand Interaction | |
| 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: 1.50 Å
- R-Value Free: 0.180
- R-Value Work: 0.151
- R-Value Observed: 0.153
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 30.13 | α = 90 |
| b = 77.496 | β = 109.19 |
| c = 45.827 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-3000 | data collection |
| MLPHARE | phasing |
| PHENIX | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
Entry History
Deposition Data
- Deposited Date: 2014-11-13
- Released Date: 2014-12-03 Deposition Author(s): Wu, R., Bearden, J., Kim, Y., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
