[English] 日本語
![](img/lk-miru.gif)
- PDB-6e0y: A131Q mutant of cyt P460 of Nitrosomonas sp. AL212 with bound NH2OH -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 6e0y | ||||||
---|---|---|---|---|---|---|---|
Title | A131Q mutant of cyt P460 of Nitrosomonas sp. AL212 with bound NH2OH | ||||||
![]() | Cytochrome P460 | ||||||
![]() | METAL BINDING PROTEIN / ![]() ![]() | ||||||
Function / homology | ![]() Cytochrome P460 / Cytochrome P460 / Cytochrome P460 superfamily / Cytochrome P460 / ![]() Similarity search - Domain/homology | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Smith, M. / Lancaster, K. | ||||||
Funding support | ![]()
| ||||||
![]() | ![]() Title: Controlling a burn: outer-sphere gating of hydroxylamine oxidation by a distal base in cytochrome P460. Authors: Smith, M.A. / Majer, S.H. / Vilbert, A.C. / Lancaster, K.M. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 147.1 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 114.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 6e0xC ![]() 6e0zC ![]() 6e17C ![]() 6amgS S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||
2 | ![]()
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 18896.076 Da / Num. of mol.: 4 / Mutation: A131Q Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-HEC / ![]() #3: Chemical | ChemComp-HOA / ![]() #4: Water | ChemComp-HOH / | ![]() |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.69 Å3/Da / Density % sol: 54.35 % |
---|---|
Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 5 Details: 0.2 M sodium chloride, 0.1 M sodium acetate, and PEG 6000 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: May 4, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.25→29.43 Å / Num. obs: 41097 / % possible obs: 94.8 % / Redundancy: 1.9 % / Rmerge(I) obs: 0.077 / Net I/σ(I): 13.6 |
Reflection shell | Resolution: 2.2572→2.3136 Å / Rmerge(I) obs: 1.65 / Num. unique obs: 41095 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure![]() ![]() Starting model: 6AMG Resolution: 2.257→29.186 Å / SU ML: 0.33 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 29.42
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.257→29.186 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell |
|