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Open data
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Basic information
Entry | Database: PDB / ID: 5l27 | ||||||
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Title | Structure of CNTnw N149L in the intermediate 1 state | ||||||
![]() | Nucleoside permease | ||||||
![]() | TRANSPORT PROTEIN / transporter / nucleoside / elevator-type alternate access | ||||||
Function / homology | ![]() pyrimidine- and adenosine-specific:sodium symporter activity / purine-specific nucleoside:sodium symporter activity / pyrimidine nucleoside transport / purine nucleoside transmembrane transport / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hirschi, M. / Johnson, Z.L. / Lee, S.-Y. | ||||||
![]() | ![]() Title: Visualizing multistep elevator-like transitions of a nucleoside transporter. Authors: Hirschi, M. / Johnson, Z.L. / Lee, S.Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 223 KB | Display | ![]() |
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PDB format | ![]() | 175.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 5l24C ![]() 5l26SC ![]() 5l2aC ![]() 5l2bC ![]() 5u9wC ![]() 5l28 ![]() 5l29 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
#1: Protein | Mass: 44673.602 Da / Num. of mol.: 3 / Mutation: N149L Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-6ZL / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.12 Å3/Da / Density % sol: 70.18 % |
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Crystal grow | Temperature: 290 K / Method: vapor diffusion, sitting drop / pH: 7.5 / Details: 50 mM Mg(OAc)2, 30% PEG400, 100 mM KCl, pH 7.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX300-HS / Detector: CCD / Date: Oct 12, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 4.1→37.64 Å / Num. obs: 16224 / % possible obs: 99.9 % / Redundancy: 4.7 % / CC1/2: 0.98 / Rpim(I) all: 0.06 / Net I/σ(I): 7.3 |
Reflection shell | Resolution: 4.1→4.58 Å / Redundancy: 4.7 % / Mean I/σ(I) obs: 2.4 / CC1/2: 0.69 / Rpim(I) all: 0.48 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5L26 Resolution: 4.1→37.638 Å / SU ML: 0.64 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 36.51 / 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: 4.1→37.638 Å
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Refine LS restraints |
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LS refinement shell |
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