[English] 日本語
![](img/lk-miru.gif)
- PDB-3lj9: X-ray structure of the iron superoxide dismutase from pseudoalter... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 3lj9 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | X-ray structure of the iron superoxide dismutase from pseudoalteromonas haloplanktis in complex with sodium azide | |||||||||
![]() | iron superoxide dismutase | |||||||||
![]() | OXIDOREDUCTASE / cold adaptation / superoxide dismutase / flexibility / thermal stability / psychrophilic protein / Metal-binding | |||||||||
Function / homology | ![]() superoxide dismutase / superoxide dismutase activity / metal ion binding Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Merlino, A. / Russo Krauss, I. / Rossi, B. / Conte, M. / Vergara, A. / Sica, F. | |||||||||
![]() | ![]() Title: Structure and flexibility in cold-adapted iron superoxide dismutases: the case of the enzyme isolated from Pseudoalteromonas haloplanktis. Authors: Merlino, A. / Russo Krauss, I. / Castellano, I. / De Vendittis, E. / Rossi, B. / Conte, M. / Vergara, A. / Sica, F. #1: Journal: Protein and Peptide letters / Year: 2008 Title: CRYSTALLIZATION AND PRELIMINARY X-RAY DIFFRACTION STUDIES of a psychrophilic iron superoxide dismutase from Pseudoalteromonas haloplanktis Authors: Merlino, A. / Russo Krauss, I. / Castellano, I. / De Vendittis, E. / Vergara, A. / Sica, F. | |||||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 92.5 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 69.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 18.6 KB | Display | |
Data in CIF | ![]() | 25.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3lioSC ![]() 3ljfC S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 21269.508 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: TAC 125 / Gene: PSHAa1215, sodB / Production host: ![]() ![]() #2: Polysaccharide | #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54.38 % |
---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 1.8M ammonium sulphate, 1.0M sodium chloride, 0.1M Hepes pH 7.5. The azide complex was prepared by soaking overnight in 2.5M ammonium sulphate, 0.1M TRIS/HCl pH 7.0., VAPOR DIFFUSION, ...Details: 1.8M ammonium sulphate, 1.0M sodium chloride, 0.1M Hepes pH 7.5. The azide complex was prepared by soaking overnight in 2.5M ammonium sulphate, 0.1M TRIS/HCl pH 7.0., VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() |
Detector | Type: RIGAKU SATURN 944 / Detector: CCD / Date: Nov 27, 2007 / Details: mirrors |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.07→33.44 Å / Num. all: 25267 / Num. obs: 24002 / % possible obs: 97.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.6 % / Rmerge(I) obs: 0.117 |
-
Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 3LIO Resolution: 2.1→33.44 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 2 / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→33.44 Å
|