Download MendeleyCrystal Structure of a putative glycerophosphodiester phosphodiesterase from Galdieria sulphuraria
Mccoy, J.G., Wesenberg, G.E., Phillips Jr., G.N., Bitto, E., Bingman, C.A.To be published.
2O55
Crystal Structure of a putative glycerophosphodiester phosphodiesterase from Galdieria sulphuraria
- PDB DOI: https://doi.org/10.2210/pdb2O55/pdb
- Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
- Organism(s): Galdieria sulphuraria
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2006-12-05 Released: 2006-12-19
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.81 Å
- R-Value Free: 0.255
- R-Value Work: 0.192
- R-Value Observed: 0.195
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 |
| putative glycerophosphodiester phosphodiesterase | 258 | Galdieria sulphuraria | Mutation(s): 0 Gene Names: c454_101305g29.t1 (MSU_Galdi) |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | B [auth A], C [auth A], D [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.81 Å
- R-Value Free: 0.255
- R-Value Work: 0.192
- R-Value Observed: 0.195
- Space Group: P 31 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 102.427 | α = 90 |
| b = 102.427 | β = 90 |
| c = 51.709 | γ = 120 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| SHARP | phasing |
| DM | phasing |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data reduction |
Entry History
Deposition Data
- Released Date: 2006-12-19 Deposition Author(s): Mccoy, J.G., Wesenberg, G.E., Phillips Jr., G.N., Bitto, E., Bingman, C.A., Center for Eukaryotic Structural Genomics (CESG)
Revision History (Full details and data files)
- Version 1.0: 2006-12-19
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2023-12-27
Changes: Data collection, Database references, Derived calculations
