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- PDB-5iwr: Structure of Transient Receptor Potential (TRP) channel TRPV6 in ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5iwr | |||||||||
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Title | Structure of Transient Receptor Potential (TRP) channel TRPV6 in the presence of barium | |||||||||
![]() | Transient receptor potential cation channel subfamily V member 6 | |||||||||
![]() | TRANSPORT PROTEIN | |||||||||
Function / homology | ![]() parathyroid hormone secretion / TRP channels / calcium-activated cation channel activity / calcium ion import / calcium ion import across plasma membrane / calcium ion homeostasis / calcium channel complex / calcium ion transmembrane transport / calcium channel activity / response to calcium ion ...parathyroid hormone secretion / TRP channels / calcium-activated cation channel activity / calcium ion import / calcium ion import across plasma membrane / calcium ion homeostasis / calcium channel complex / calcium ion transmembrane transport / calcium channel activity / response to calcium ion / calcium ion transport / protein homotetramerization / calmodulin binding / apical plasma membrane / identical protein binding / metal ion binding / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Saotome, K. / Singh, A.K. / Yelshanskaya, M.V. / Sobolevsky, A.I. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal structure of the epithelial calcium channel TRPV6. Authors: Saotome, K. / Singh, A.K. / Yelshanskaya, M.V. / Sobolevsky, A.I. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 133.4 KB | Display | ![]() |
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PDB format | ![]() | 102 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 451.2 KB | Display | ![]() |
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Full document | ![]() | 467.1 KB | Display | |
Data in XML | ![]() | 24.7 KB | Display | |
Data in CIF | ![]() | 32.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5iwkC ![]() 5iwpC ![]() 5iwtC ![]() 2rfaS C: citing same article ( S: Starting model for refinement |
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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 on special symmetry positions |
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Components
#1: Protein | Mass: 77148.469 Da / Num. of mol.: 1 / Mutation: I102Y, L132N, M136Q, L535Q Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||
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#2: Chemical | ChemComp-BA / #3: Chemical | ChemComp-DTB / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.85 Å3/Da / Density % sol: 67 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion Details: 20-24% PEG 350 MME, 50 mM NaCl, and 50 mM Tris-HCl pH 8.0-8.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Mar 24, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.75 Å / Relative weight: 1 |
Reflection | Resolution: 3.85→49.56 Å / Num. obs: 21705 / % possible obs: 99.5 % / Redundancy: 15.4 % / CC1/2: 0.98 / Rmerge(I) obs: 0.131 / Net I/σ(I): 15.2 |
Reflection shell | Resolution: 3.85→3.99 Å / Redundancy: 13.9 % / Rmerge(I) obs: 2.285 / Mean I/σ(I) obs: 1.5 / % possible all: 95.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2RFA Resolution: 3.85→49.556 Å / SU ML: 0.62 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 33.89 / 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 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.85→49.556 Å
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Refine LS restraints |
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LS refinement shell |
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