[English] 日本語
![](img/lk-miru.gif)
- PDB-3d1h: Structure of the PTP-Like Phytase Expressed by Selenomonas Rumina... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 3d1h | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of the PTP-Like Phytase Expressed by Selenomonas Ruminantium at an Ionic Strength of 500 mM | ||||||
![]() | Myo-inositol hexaphosphate phosphohydrolase | ||||||
![]() | HYDROLASE / PTP / PROTEIN TYROSINE PHOSPHATASE / PHYTASE / P-LOOP | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Gruninger, R.J. / Selinger, L.B. / Mosimann, S.C. | ||||||
![]() | ![]() Title: Effect of ionic strength and oxidation on the P-loop conformation of the protein tyrosine phosphatase-like phytase, PhyAsr. Authors: Gruninger, R.J. / Brent Selinger, L. / Mosimann, S.C. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 148.3 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 115.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 446.5 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 448.9 KB | Display | |
Data in XML | ![]() | 28 KB | Display | |
Data in CIF | ![]() | 41.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2pszC ![]() 2pt0C ![]() 3d1oC ![]() 3d1qC ![]() 2b4pS S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 38987.910 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-GOL / #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 3.14 Å3/Da / Density % sol: 60.81 % |
---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 4.8 Details: 10% P8K, 450 MM NACL, 50 MM NA-ACETATE, pH 4.8, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Oct 20, 2006 |
Radiation | Monochromator: DOUBLE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1158 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→50 Å / Num. obs: 46736 / % possible obs: 91 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 2 % / Biso Wilson estimate: 18.8 Å2 / Rmerge(I) obs: 0.063 / Rsym value: 0.055 / Net I/σ(I): 16.6 |
Reflection shell | Resolution: 2.1→2.18 Å / Redundancy: 1.6 % / Rmerge(I) obs: 0.207 / Mean I/σ(I) obs: 3.2 / Num. unique all: 3133 / Rsym value: 0.19 / % possible all: 56.4 |
-
Processing
Software |
| |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: PDB entry 2b4p Resolution: 2.1→50 Å / Isotropic thermal model: isotropic / Cross valid method: THROUGHOUT / σ(F): 1.5 / σ(I): 1.5 / Stereochemistry target values: Engh & Huber
| |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→50 Å
|