Download MendeleyStructure of putative oxidoreductase yvaA from Bacillus subtilis.
Ramagopal, U.A., Toro, R., Burley, S.K., Almo, S.C.To be published.
3GDO
Crystal structure of putative oxidoreductase yvaA from Bacillus subtilis
- PDB DOI: https://doi.org/10.2210/pdb3GDO/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Bacillus subtilis subsp. subtilis str. 168
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2009-02-24 Released: 2009-03-24
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.03 Å
- R-Value Free: 0.249
- R-Value Work: 0.204
- R-Value Observed: 0.206
wwPDB Validation 3D Report Full Report
This is version 1.4 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 |
| Uncharacterized oxidoreductase yvaA | 358 | Bacillus subtilis subsp. subtilis str. 168 | Mutation(s): 0 Gene Names: BSU33530, yvaA |  | |
UniProt | |||||
Find proteins for O32223 (Bacillus subtilis (strain 168)) Explore O32223 Go to UniProtKB: O32223 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O32223 | ||||
Sequence AnnotationsExpand | |||||
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Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.03 Å
- R-Value Free: 0.249
- R-Value Work: 0.204
- R-Value Observed: 0.206
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 49.324 | α = 90 |
| b = 151.309 | β = 107.14 |
| c = 56.395 | γ = 90 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| ADSC | data collection |
| HKL-2000 | data reduction |
| SHELXD | phasing |
| SHELXE | model building |
| PHENIX | phasing |
| CCP4 | phasing |
Entry History
Deposition Data
- Released Date: 2009-03-24 Deposition Author(s): Ramagopal, U.A., Toro, R., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)
Revision History (Full details and data files)
- Version 1.0: 2009-03-24
Type: Initial release - Version 1.1: 2011-07-13
Changes: Source and taxonomy, Version format compliance - Version 1.2: 2017-11-01
Changes: Refinement description - Version 1.3: 2021-02-10
Changes: Database references, Structure summary - Version 1.4: 2024-02-21
Changes: Data collection, Database references
