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Open data
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Basic information
Entry | Database: PDB / ID: 5l2a | ||||||
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Title | Structure of CNTnw N149S,F366A in an outward-facing state | ||||||
![]() | Nucleoside permease | ||||||
![]() | TRANSPORT PROTEIN / transporter / 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 | ![]() | 232.7 KB | Display | ![]() |
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PDB format | ![]() | 186.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 698.1 KB | Display | ![]() |
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Full document | ![]() | 709 KB | Display | |
Data in XML | ![]() | 25.5 KB | Display | |
Data in CIF | ![]() | 38.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5l24C ![]() 5l26SC ![]() 5l27C ![]() 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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Unit cell |
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Components
#1: Protein | Mass: 44571.430 Da / Num. of mol.: 3 / Mutation: N149S, F366A 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: 4.24 Å3/Da / Density % sol: 70.99 % |
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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 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Jul 7, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9791 Å / Relative weight: 1 |
Reflection | Resolution: 3.45→40 Å / Num. obs: 53483 / % possible obs: 99.6 % / Redundancy: 5.8 % / CC1/2: 0.98 / Rpim(I) all: 0.09 / Net I/σ(I): 5.6 |
Reflection shell | Resolution: 3.45→3.66 Å / Redundancy: 5.3 % / Mean I/σ(I) obs: 0.5 / CC1/2: 0.76 / Rrim(I) all: 0.6 / % possible all: 99.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5L26 Resolution: 3.45→38.978 Å / SU ML: 0.69 / Cross valid method: FREE R-VALUE / σ(F): 0.01 / Phase error: 38.1 / 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: 3.45→38.978 Å
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Refine LS restraints |
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LS refinement shell |
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