Download MendeleyCrystal structure of the YdhT protein from Bacillus subtilis.
Bonanno, J.B., Rutter, M., Bain, K.T., Iizuka, M., Romero, R., Smith, D., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C.To be published.
3CBW
Crystal structure of the YdhT protein from Bacillus subtilis
- PDB DOI: https://doi.org/10.2210/pdb3CBW/pdb
- Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
- Organism(s): Bacillus subtilis
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2008-02-23 Released: 2008-03-11
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.27 Å
- R-Value Free: 0.172
- R-Value Work: 0.149
- R-Value Observed: 0.151
wwPDB Validation 3D Report Full Report
This is version 1.5 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 |
| YdhT protein | 353 | Bacillus subtilis | Mutation(s): 3 Gene Names: ydhT, BSU05880 |  | |
UniProt | |||||
Find proteins for O05512 (Bacillus subtilis (strain 168)) Explore O05512 Go to UniProtKB: O05512 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O05512 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CIT Query on CIT | C [auth B], D [auth B], E [auth B] | CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.27 Å
- R-Value Free: 0.172
- R-Value Work: 0.149
- R-Value Observed: 0.151
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 57.728 | α = 90 |
| b = 69.619 | β = 91.09 |
| c = 72.505 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SCALA | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| MAR345 | data collection |
| MOSFLM | data reduction |
| SHELXCD | phasing |
| SHELXE | model building |
Entry History
Deposition Data
- Released Date: 2008-03-11 Deposition Author(s): Bonanno, J.B., Rutter, M., Bain, K.T., Iizuka, M., Romero, R., Smith, D., Wasserman, S., Sauder, J.M., 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: 2008-03-11
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-10-25
Changes: Refinement description - Version 1.3: 2018-11-14
Changes: Data collection, Structure summary - Version 1.4: 2021-02-03
Changes: Database references, Derived calculations, Structure summary - Version 1.5: 2021-10-20
Changes: Database references
