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- PDB-4il4: The pentameric ligand-gated ion channel GLIC in complex with Se-DDM -
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Open data
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Basic information
Entry | Database: PDB / ID: 4il4 | ||||||
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Title | The pentameric ligand-gated ion channel GLIC in complex with Se-DDM | ||||||
![]() | Proton-gated ion channel | ||||||
![]() | MEMBRANE PROTEIN / TRANSPORT PROTEIN / pentameric ligand-gated ion channel / ion channel / membrane | ||||||
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 | ![]() ![]() ![]() | ||||||
![]() | Sauguet, L. / Malherbe, L. / Corringer, P.J. / Delarue, M. | ||||||
![]() | ![]() Title: Structural basis for ion permeation mechanism in pentameric ligand-gated ion channels. Authors: Sauguet, L. / Poitevin, F. / Murail, S. / Van Renterghem, C. / Moraga-Cid, G. / Malherbe, L. / Thompson, A.W. / Koehl, P. / Corringer, P.J. / Baaden, M. / Delarue, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 322 KB | Display | ![]() |
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PDB format | ![]() | 263 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.4 MB | Display | ![]() |
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Full document | ![]() | 1.4 MB | Display | |
Data in XML | ![]() | 53.4 KB | Display | |
Data in CIF | ![]() | 72.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4hfiSC ![]() 4il9C ![]() 4ilaC ![]() 4ilbC ![]() 4ilcC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
-Protein / Sugars , 2 types, 11 molecules ABCDE![](data/chem/img/LSM.gif)
![](data/chem/img/LSM.gif)
#1: Protein | Mass: 36291.750 Da / Num. of mol.: 5 / Fragment: UNP residues 44-359 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #5: Sugar | ChemComp-LSM / |
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-Non-polymers , 4 types, 54 molecules ![](data/chem/img/ACT.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/NA.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-ACT / #3: Chemical | ChemComp-CL / #4: Chemical | ChemComp-NA / #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 5.19 Å3/Da / Density % sol: 76.32 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 4 Details: 12.5-15% PEG4000, 0.1M NaAcetate pH4, 0.4M NaSCN, VAPOR DIFFUSION, HANGING DROP, temperature 291K |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||||||||
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 30, 2011 | |||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 | |||||||||||||||||||||
Reflection | Resolution: 3.3→30 Å / Num. all: 55915 / Num. obs: 55635 / % possible obs: 99.5 % / Redundancy: 6.1 % / Biso Wilson estimate: 85.75 Å2 / Rmerge(I) obs: 0.092 / Rsym value: 0.037 / Net I/σ(I): 15 | |||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 4HFI Resolution: 3.3→29.95 Å / Cor.coef. Fo:Fc: 0.8444 / Cor.coef. Fo:Fc free: 0.8351 / SU R Cruickshank DPI: 1.143 / Cross valid method: THROUGHOUT / σ(F): 0
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Displacement parameters | Biso mean: 87.55 Å2
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Refine analyze | Luzzati coordinate error obs: 0.61 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.3→29.95 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.3→3.39 Å / Total num. of bins used: 20
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