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Open data
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Basic information
Entry | Database: PDB / ID: 7mk6 | ||||||
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Title | KcsA open gate E71V mutant with sodium | ||||||
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![]() | MEMBRANE PROTEIN / ion channels | ||||||
Function / homology | delayed rectifier potassium channel activity / Potassium channel domain / Ion channel / voltage-gated potassium channel complex / identical protein binding / pH-gated potassium channel KcsA![]() | ||||||
Biological species | synthetic construct (others)![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Rohaim, A. / Li, J. / Weingarth, M. / Roux, B. | ||||||
Funding support | ![]()
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![]() | ![]() Title: A distinct mechanism of C-type inactivation in the Kv-like KcsA mutant E71V. Authors: Rohaim, A. / Vermeulen, B.J.A. / Li, J. / Kummerer, F. / Napoli, F. / Blachowicz, L. / Medeiros-Silva, J. / Roux, B. / Weingarth, 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 | ![]() | 208.7 KB | Display | ![]() |
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PDB format | ![]() | 167.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 450.7 KB | Display | ![]() |
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Full document | ![]() | 468.5 KB | Display | |
Data in XML | ![]() | 21.7 KB | Display | |
Data in CIF | ![]() | 29.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7mhrC ![]() 7mhxC ![]() 7mjtC ![]() 7mubC ![]() 5vk6S S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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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 on special symmetry positions |
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Components
#1: Antibody | Mass: 24379.131 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) synthetic construct (others) / Production host: ![]() ![]() |
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#2: Antibody | Mass: 23604.207 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) synthetic construct (others) / Production host: ![]() ![]() |
#3: Protein | Mass: 10133.879 Da / Num. of mol.: 1 / Mutation: A28C, E71V, L90C, R117Q, E118C, E120Q, R121Q Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.21 Å3/Da / Density % sol: 61.67 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop Details: 50 mM sodium/ammonium acetate pH 5.5, 50 mM Magnesium acetate, 25% PEG 400 |
-Data collection
Diffraction | Mean temperature: 98 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Mar 28, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 3.1→99.09 Å / Num. obs: 12391 / % possible obs: 99.9 % / Redundancy: 6.4 % / CC1/2: 0.993 / Net I/σ(I): 8.3 |
Reflection shell | Resolution: 3.1→3.31 Å / Num. unique obs: 2218 / CC1/2: 0.165 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5vk6 Resolution: 3.1→20 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.944 / SU B: 65.775 / SU ML: 0.523 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R Free: 0.458 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 264.26 Å2 / Biso mean: 143.582 Å2 / Biso min: 72.44 Å2
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Refinement step | Cycle: final / Resolution: 3.1→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.1→3.179 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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