[English] 日本語
![](img/lk-miru.gif)
- PDB-6gqh: Structure of GFPmut2 crystallized at pH 8.5 and transferred to pH 6 -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 6gqh | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of GFPmut2 crystallized at pH 8.5 and transferred to pH 6 | ||||||
![]() | Green fluorescent protein![]() | ||||||
![]() | ![]() ![]() ![]() | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() ![]() | ||||||
![]() | Pasqualetto, E. / Lolli, G. / Battistutta, R. | ||||||
![]() | ![]() Title: Insight into GFPmut2 pH Dependence by Single Crystal Microspectrophotometry and X-ray Crystallography. Authors: Lolli, G. / Raboni, S. / Pasqualetto, E. / Benoni, R. / Campanini, B. / Ronda, L. / Mozzarelli, A. / Bettati, S. / Battistutta, R. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 62.8 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 43.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 6go8C ![]() 6go9C ![]() 6gqgC ![]() 6grmC ![]() 1q4aS C: citing same article ( S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: Protein | ![]() Mass: 27433.920 Da / Num. of mol.: 1 Mutation: S65A, V68L, S72A; First six residues GSHIGP derive from the expression tag Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() |
---|---|
#2: Chemical | ChemComp-CA / |
#3: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.02 Å3/Da / Density % sol: 39.16 % / Mosaicity: 0.43 ° |
---|---|
Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion / pH: 8.5 / Details: 0.2 M CaCl2, 19% PEG 4000 |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS 2M / Detector: PIXEL / Date: Oct 30, 2010 | ||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||
Radiation wavelength | Wavelength![]() | ||||||||||||||||||||||||
Reflection | Resolution: 2.4→46.38 Å / Num. obs: 9172 / % possible obs: 100 % / Redundancy: 6.3 % / Biso Wilson estimate: 40.53 Å2 / CC1/2: 0.997 / Rmerge(I) obs: 0.105 / Rpim(I) all: 0.045 / Rrim(I) all: 0.115 / Net I/σ(I): 11.9 / Num. measured all: 57671 | ||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
|
-Phasing
Phasing![]() | Method: ![]() |
---|
-
Processing
Software |
| ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure![]() ![]() Starting model: 1Q4A Resolution: 2.4→46.379 Å / SU ML: 0.29 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 27.23
| ||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||
Displacement parameters | Biso max: 95.96 Å2 / Biso mean: 41.1483 Å2 / Biso min: 20.49 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.4→46.379 Å
| ||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||
LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 3 / % reflection obs: 100 %
|