Download MendeleyStructure of Ygr203w, a yeast protein tyrosine phosphatase of the Rhodanese family
Proudfoot, M., Brown, G., Singer, A.U., Xu, X., Cui, H., Edwards, A.M., Joachimiak, A., Savchenko, A., Yakunin, A.F.To be published.
3F4A
Structure of Ygr203w, a yeast protein tyrosine phosphatase of the Rhodanese family
- PDB DOI: https://doi.org/10.2210/pdb3F4A/pdb
- Classification: HYDROLASE
- Organism(s): Saccharomyces cerevisiae
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2008-10-31 Released: 2008-11-25
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.211
- R-Value Work: 0.166
- R-Value Observed: 0.168
wwPDB Validation 3D Report Full Report
This is version 1.3 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 protein YGR203W | 169 | Saccharomyces cerevisiae | Mutation(s): 0 Gene Names: G7731, YGR203W EC: 3.1.3.16 |  | |
UniProt | |||||
Find proteins for P42937 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P42937 Go to UniProtKB: P42937 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P42937 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | C [auth A] D [auth A] E [auth A] F [auth A] H [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| CL Query on CL | G [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| NH4 Query on NH4 | L [auth B] | AMMONIUM ION H4 N QGZKDVFQNNGYKY-UHFFFAOYSA-O |  | ||
| 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: 1.80 Å
- R-Value Free: 0.211
- R-Value Work: 0.166
- R-Value Observed: 0.168
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 74.382 | α = 90 |
| b = 72.025 | β = 103.6 |
| c = 53.514 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SBC-Collect | data collection |
| SHELXCD | phasing |
| SHELXE | model building |
| REFMAC | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
Entry History
Deposition Data
- Released Date: 2008-11-25 Deposition Author(s): Singer, A.U., Xu, X., Cui, H., Osipiuk, J., Joachimiak, A., Edwards, A.M., Yakunin, A.F., Savchenko, A., Midwest Center for Structural Genomics (MCSG)
Revision History (Full details and data files)
- Version 1.0: 2008-11-25
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-10-25
Changes: Advisory, Refinement description - Version 1.3: 2023-12-27
Changes: Advisory, Data collection, Database references, Derived calculations
