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Open data
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Basic information
Entry | Database: PDB / ID: 6v3c | ||||||
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Title | K2P2.1(TREK-1)I110D:Ru360 bound channel structure | ||||||
![]() | Potassium channel subfamily K member 2 | ||||||
![]() | MEMBRANE PROTEIN / K channel / TREK-1 / Mus musculus | ||||||
Function / homology | ![]() TWIK related potassium channel (TREK) / Phase 4 - resting membrane potential / positive regulation of cellular response to hypoxia / cardiac ventricle development / negative regulation of cardiac muscle cell proliferation / stabilization of membrane potential / potassium ion leak channel activity / astrocyte projection / potassium channel inhibitor activity / negative regulation of DNA biosynthetic process ...TWIK related potassium channel (TREK) / Phase 4 - resting membrane potential / positive regulation of cellular response to hypoxia / cardiac ventricle development / negative regulation of cardiac muscle cell proliferation / stabilization of membrane potential / potassium ion leak channel activity / astrocyte projection / potassium channel inhibitor activity / negative regulation of DNA biosynthetic process / outward rectifier potassium channel activity / cochlea development / voltage-gated potassium channel activity / calyx of Held / response to axon injury / response to mechanical stimulus / axon terminus / potassium ion transmembrane transport / voltage-gated potassium channel complex / regulation of membrane potential / potassium ion transport / memory / cellular response to hypoxia / G protein-coupled receptor signaling pathway / apical plasma membrane / axon / neuronal cell body / cell surface / endoplasmic reticulum / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Pope, L. / Lolicato, M. / Minor, D.L. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Polynuclear Ruthenium Amines Inhibit K2PChannels via a "Finger in the Dam" Mechanism. Authors: Pope, L. / Lolicato, M. / Minor Jr., D.L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 118.6 KB | Display | ![]() |
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PDB format | ![]() | 88.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 330.6 KB | Display | ![]() |
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Full document | ![]() | 331 KB | Display | |
Data in XML | ![]() | 1.7 KB | Display | |
Data in CIF | ![]() | 7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6v36C ![]() 6v37C ![]() 6v3iC ![]() 4rueS 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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1 |
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Unit cell |
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Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 34305.867 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Non-polymers , 7 types, 17 molecules ![](data/chem/img/RU3.gif)
![](data/chem/img/CD.gif)
![](data/chem/img/K.gif)
![](data/chem/img/OCT.gif)
![](data/chem/img/LNK.gif)
![](data/chem/img/HEX.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CD.gif)
![](data/chem/img/K.gif)
![](data/chem/img/OCT.gif)
![](data/chem/img/LNK.gif)
![](data/chem/img/HEX.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-RU3 / | ||||||||||
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#3: Chemical | #4: Chemical | ChemComp-K / #5: Chemical | ChemComp-OCT / #6: Chemical | ChemComp-LNK / | #7: Chemical | ChemComp-HEX / | #8: Water | ChemComp-HOH / | |
-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.79 Å3/Da / Density % sol: 67.56 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop Details: 0.1 M KCl, 1-3 mM CdCl2, 0.1 M HEPES 7-8, 20-25% PEG400 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Aug 18, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0332 Å / Relative weight: 1 |
Reflection | Resolution: 3.51→46.4 Å / Num. obs: 12595 / % possible obs: 100 % / Redundancy: 13.3 % / CC1/2: 1 / Net I/σ(I): 10.8 |
Reflection shell | Resolution: 3.51→3.85 Å / Num. unique obs: 530 / CC1/2: 0.149 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4RUE Resolution: 3.51→14.98 Å / SU ML: 0.6 / Cross valid method: THROUGHOUT / σ(F): 1.33 / Phase error: 44.65 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 327.88 Å2 / Biso mean: 203.5724 Å2 / Biso min: 119.59 Å2 | |||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3.51→14.98 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 4
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