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Open data
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Basic information
Entry | Database: PDB / ID: 6yu6 | |||||||||||||||
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Title | Crystal structure of MhsT in complex with L-leucine | |||||||||||||||
![]() | Sodium-dependent transporter | |||||||||||||||
![]() | TRANSPORT PROTEIN / LeuT-fold / amino acid transporter / L-leucine | |||||||||||||||
Function / homology | : / Sodium:neurotransmitter symporter / Sodium:neurotransmitter symporter superfamily / Sodium:neurotransmitter symporter family / Sodium:neurotransmitter symporter family profile. / membrane / LEUCINE / Na+-dependent transporter / Sodium-dependent transporter![]() | |||||||||||||||
Biological species | ![]() | |||||||||||||||
Method | ![]() ![]() ![]() | |||||||||||||||
![]() | Focht, D. / Neumann, C. / Lyons, J. / Eguskiza Bilbao, A. / Blunck, R. / Malinauskaite, L. / Schwarz, I.O. / Javitch, J.A. / Quick, M. / Nissen, P. | |||||||||||||||
Funding support | ![]()
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![]() | ![]() Title: A non-helical region in transmembrane helix 6 of hydrophobic amino acid transporter MhsT mediates substrate recognition. Authors: Focht, D. / Neumann, C. / Lyons, J. / Eguskiza Bilbao, A. / Blunck, R. / Malinauskaite, L. / Schwarz, I.O. / Javitch, J.A. / Quick, M. / Nissen, P. | |||||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 183.2 KB | Display | ![]() |
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PDB format | ![]() | 143.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 3.3 MB | Display | ![]() |
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Full document | ![]() | 3.4 MB | Display | |
Data in XML | ![]() | 31.5 KB | Display | |
Data in CIF | ![]() | 43.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6yu2C ![]() 6yu3C ![]() 6yu4C ![]() 6yu5C ![]() 6yu7C ![]() 4us3S 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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2 | ![]()
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Unit cell |
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Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 48360.844 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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-Sugars , 2 types, 8 molecules ![](data/chem/img/LMT.gif)
![](data/chem/img/SOG.gif)
![](data/chem/img/SOG.gif)
#4: Sugar | ChemComp-LMT / #5: Sugar | ChemComp-SOG / |
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-Non-polymers , 3 types, 52 molecules ![](data/chem/img/NA.gif)
![](data/chem/img/LEU.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/LEU.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-NA / #3: Chemical | #6: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.47 Å3/Da / Density % sol: 50.26 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion, hanging drop / pH: 7 Details: Crystallized using HiLiDe with DOPC as added lipid. Crystals were obtained in 14-24% PEG400, 0.3-0.5M NaCl, 0.1M Tris-HCl or HEPES-NaOH pH 7.0, 5% Trimethylamine N-oxide (TMANO), 5% or 10% glycerol. |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER2 XE 16M / Detector: PIXEL / Date: May 19, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97949 Å / Relative weight: 1 |
Reflection twin | Operator: h,-k,-l / Fraction: 0.48 |
Reflection | Resolution: 2.35→45.5 Å / Num. obs: 38291 / % possible obs: 98.5 % / Redundancy: 3 % / CC1/2: 0.996 / Net I/σ(I): 8.1 |
Reflection shell | Resolution: 2.35→2.43 Å / Num. unique obs: 3843 / CC1/2: 0.511 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4US3 Resolution: 2.35→45.484 Å / Cross valid method: THROUGHOUT / σ(F): 2.06 / Phase error: 23.51
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 97.19 Å2 / Biso mean: 41.5976 Å2 / Biso min: 28.21 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.35→45.484 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 14
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