[English] 日本語
![](img/lk-miru.gif)
- PDB-5l47: X-ray structure of the 2-22' locally-closed mutant of GLIC in com... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 5l47 | ||||||
---|---|---|---|---|---|---|---|
Title | X-ray structure of the 2-22' locally-closed mutant of GLIC in complex with cyanoselenobarbital (seleniated barbiturate) | ||||||
![]() | Proton-gated ion channel | ||||||
![]() | MEMBRANE PROTEIN / TRANSPORT PROTEIN | ||||||
Function / homology | ![]() sodium channel activity / extracellular ligand-gated monoatomic ion channel activity / potassium channel activity / transmembrane transporter complex / regulation of membrane potential / transmembrane signaling receptor activity / neuron projection / signal transduction / identical protein binding / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Reinholds Ruza, R. / Fourati, Z. / Delarue, M. | ||||||
Funding support | ![]()
| ||||||
![]() | ![]() Title: Barbiturates Bind in the GLIC Ion Channel Pore and Cause Inhibition by Stabilizing a Closed State. Authors: Fourati, Z. / Ruza, R.R. / Laverty, D. / Drege, E. / Delarue-Cochin, S. / Joseph, D. / Koehl, P. / Smart, T. / Delarue, M. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 318.2 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 261.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 752.8 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 762.9 KB | Display | |
Data in XML | ![]() | 54.1 KB | Display | |
Data in CIF | ![]() | 73.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5l4eC ![]() 5l4hC ![]() 3tlvS S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
-Protein , 1 types, 5 molecules ABCDE
#1: Protein | Mass: 36225.605 Da / Num. of mol.: 5 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
---|
-Non-polymers , 6 types, 123 molecules ![](data/chem/img/CL.gif)
![](data/chem/img/ACT.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/6JA.gif)
![](data/chem/img/D12.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/ACT.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/6JA.gif)
![](data/chem/img/D12.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-CL / #3: Chemical | ChemComp-ACT / #4: Chemical | ChemComp-NA / #5: Chemical | ChemComp-6JA / | #6: Chemical | ChemComp-D12 / | #7: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 5.07 Å3/Da / Density % sol: 75.73 % |
---|---|
Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 4 Details: 100 mM Na Acetate pH4, 200 mM Na SCN, 12-15% PEG4000, 3% DMSO, 16% glycerol PH range: 4-5 |
-Data collection
Diffraction | Mean temperature: 80 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Nov 7, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.93 Å / Relative weight: 1 |
Reflection | Resolution: 2.99→50 Å / Num. obs: 72625 / % possible obs: 99.1 % / Redundancy: 3.9 % / Biso Wilson estimate: 93.49 Å2 / Net I/σ(I): 9.4 |
Reflection shell | Resolution: 2.99→3.15 Å / Redundancy: 3.1 % / Mean I/σ(I) obs: 1.9 / % possible all: 99.5 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 3TLV.pdb Resolution: 3.3→49 Å / Cor.coef. Fo:Fc: 0.8344 / Cor.coef. Fo:Fc free: 0.8028 / SU R Cruickshank DPI: 0.607 / Cross valid method: THROUGHOUT / SU R Blow DPI: 0.535 / SU Rfree Blow DPI: 0.3 / SU Rfree Cruickshank DPI: 0.313
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 89.93 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0.448 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: 1 / Resolution: 3.3→49 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 3.1→3.18 Å / Total num. of bins used: 20
|