Download MendeleyCrystal structure of putative YfrE protein from Vibrio parahaemolyticus.
Chang, C., Hatzos, C., Abdullah, J., Joachimiak, A.To be published.
3BEE
Crystal structure of putative YfrE protein from Vibrio parahaemolyticus
- PDB DOI: https://doi.org/10.2210/pdb3BEE/pdb
- Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
- Organism(s): Vibrio parahaemolyticus RIMD 2210633
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2007-11-16 Released: 2007-12-04
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.15 Å
- R-Value Free: 0.214
- R-Value Work: 0.191
- R-Value Observed: 0.192
wwPDB Validation 3D Report Full Report
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 YfrE protein | 93 | Vibrio parahaemolyticus RIMD 2210633 | Mutation(s): 0 Gene Names: VP1931 |  | |
UniProt | |||||
Find proteins for Q87ND7 (Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)) Explore Q87ND7 Go to UniProtKB: Q87ND7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q87ND7 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EDO Query on EDO | C [auth A], D [auth A], E [auth A], F [auth B] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| 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: 2.15 Å
- R-Value Free: 0.214
- R-Value Work: 0.191
- R-Value Observed: 0.192
- Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 82.383 | α = 90 |
| b = 82.383 | β = 90 |
| c = 74.342 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| SBC-Collect | data collection |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
| HKL-3000 | phasing |
Entry History
Deposition Data
- Released Date: 2007-12-04 Deposition Author(s): Chang, C., Hatzos, C., Abdullah, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
Revision History (Full details and data files)
- Version 1.0: 2007-12-04
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance
