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Open data
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Basic information
Entry | Database: PDB / ID: 6hdb | |||||||||
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Title | Crystal structure of the potassium channel MtTMEM175 with zinc | |||||||||
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![]() | TRANSPORT PROTEIN / lysosome / TMEM175 / potassium channel | |||||||||
Function / homology | ![]() proton channel activity / potassium ion leak channel activity / detection of maltose stimulus / maltose transport complex / carbohydrate transport / carbohydrate transmembrane transporter activity / maltose binding / maltose transport / maltodextrin transmembrane transport / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing ...proton channel activity / potassium ion leak channel activity / detection of maltose stimulus / maltose transport complex / carbohydrate transport / carbohydrate transmembrane transporter activity / maltose binding / maltose transport / maltodextrin transmembrane transport / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / potassium ion transmembrane transport / ATP-binding cassette (ABC) transporter complex / cell chemotaxis / outer membrane-bounded periplasmic space / protein homotetramerization / periplasmic space / DNA damage response / membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Brunner, J.D. / Jakob, R.P. / Schulze, T. / Neldner, Y. / Moroni, A. / Thiel, G. / Maier, T. / Schenck, S. | |||||||||
![]() | ![]() Title: Structural basis for ion selectivity in TMEM175 K+channels. Authors: Brunner, J.D. / Jakob, R.P. / Schulze, T. / Neldner, Y. / Moroni, A. / Thiel, G. / Maier, T. / Schenck, S. #1: ![]() Title: Structural basis for ion selectivity in TMEM175 K+ channels Authors: Brunner, J.D. / Jakob, R.P. / Schulze, T. / Neldner, Y. / Moroni, A. / Thiel, G. / Maier, T. / Schenck, S. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 562.8 KB | Display | ![]() |
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PDB format | ![]() | 471.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 941.1 KB | Display | ![]() |
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Full document | ![]() | 967.4 KB | Display | |
Data in XML | ![]() | 25.5 KB | Display | |
Data in CIF | ![]() | 34.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6hd8C ![]() 6hd9C ![]() 6hdaC ![]() 6hdcC ![]() 6swrC ![]() 1anfS ![]() 5jqhS 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 on special symmetry positions |
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Components
-Antibody / Protein , 2 types, 2 molecules AB
#1: Antibody | Mass: 53267.004 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() Plasmid: pBXNPHM3 / Gene: malE, b4034, JW3994 / Production host: ![]() ![]() |
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#2: Protein | Mass: 29480.971 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: Ftrac_2467 / Plasmid: pBXC3H / Production host: ![]() ![]() |
-Sugars , 2 types, 2 molecules ![](data/chem/img/LMT.gif)
#3: Polysaccharide | alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose / alpha-maltose |
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#4: Sugar | ChemComp-LMT / |
-Non-polymers , 3 types, 22 molecules ![](data/chem/img/K.gif)
![](data/chem/img/ZN.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/ZN.gif)
![](data/chem/img/HOH.gif)
#5: Chemical | #6: Chemical | ChemComp-ZN / | #7: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.49 Å3/Da / Density % sol: 64.77 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 100 mM Tris-HCl pH 8.5, 150 mM NaCl, 150 mM MgCl2 and 28- 30% PEG400 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Oct 7, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.2461 Å / Relative weight: 1 |
Reflection | Resolution: 2.9→46.64 Å / Num. obs: 26575 / % possible obs: 99.9 % / Redundancy: 27 % / Biso Wilson estimate: 125.03 Å2 / CC1/2: 0.999 / Rpim(I) all: 0.026 / Rrim(I) all: 0.177 / Net I/σ(I): 10.2 |
Reflection shell | Resolution: 2.9→3.004 Å / Redundancy: 27.1 % / Num. unique obs: 2588 / Rpim(I) all: 2.23 / Rrim(I) all: 14.32 / % possible all: 99.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1ANF, 5JQH Resolution: 2.9→44.1 Å / Cor.coef. Fo:Fc: 0.801 / Cor.coef. Fo:Fc free: 0.877 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.881 / SU Rfree Blow DPI: 0.372
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Displacement parameters | Biso mean: 162.04 Å2
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Refine analyze | Luzzati coordinate error obs: 0.52 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: 1 / Resolution: 2.9→44.1 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.9→3.02 Å / Total num. of bins used: 13
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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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