[English] 日本語
![](img/lk-miru.gif)
- PDB-6bav: Crystal Structure of GltPh R397C in complex with S-Benzyl-L-Cysteine -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 6bav | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Crystal Structure of GltPh R397C in complex with S-Benzyl-L-Cysteine | |||||||||
![]() | Glutamate transporter homolog | |||||||||
![]() | TRANSPORT PROTEIN / Amino Acid transporter / Transmembrane transporter Aspartate transporter | |||||||||
Function / homology | ![]() amino acid:sodium symporter activity / L-aspartate transmembrane transport / L-aspartate transmembrane transporter activity / L-aspartate import across plasma membrane / chloride transmembrane transporter activity / protein homotrimerization / chloride transmembrane transport / identical protein binding / metal ion binding / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Font, J. / Scopelliti, A.J. / Vandenberg, R.J. / Boudker, O. / Ryan, R.M. | |||||||||
Funding support | ![]() ![]()
| |||||||||
![]() | ![]() Title: Structural characterisation reveals insights into substrate recognition by the glutamine transporter ASCT2/SLC1A5. Authors: Scopelliti, A.J. / Font, J. / Vandenberg, R.J. / Boudker, O. / Ryan, R.M. | |||||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 466.2 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 391.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 461.6 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 480.7 KB | Display | |
Data in XML | ![]() | 43.1 KB | Display | |
Data in CIF | ![]() | 58.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6batC ![]() 6bauC ![]() 6bmiC ![]() 2nwwS S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||||||||||||||||||||||||||
Unit cell |
| ||||||||||||||||||||||||||||||||||||
Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
|
-
Components
#1: Protein | Mass: 44256.660 Da / Num. of mol.: 3 / Mutation: R397C Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3 Gene: PH1295 / Plasmid: PBAD24 / Production host: ![]() ![]() #2: Chemical | #3: Chemical | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 4.74 Å3/Da / Density % sol: 74.03 % / Description: Sword |
---|---|
Crystal grow | Temperature: 280 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 50 mM citric acid 50 mM Disodium phosphate 100 mM Lithium sulfate 15-23% PEG1000 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Sep 27, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9537 Å / Relative weight: 1 |
Reflection | Resolution: 3.7→49.07 Å / Num. obs: 24809 / % possible obs: 97.5 % / Redundancy: 3.5 % / CC1/2: 0.997 / Rmerge(I) obs: 0.078 / Rpim(I) all: 0.046 / Rrim(I) all: 0.091 / Net I/σ(I): 8.7 |
Reflection shell | Resolution: 3.7→3.9 Å / Redundancy: 3.4 % / Rmerge(I) obs: 0.552 / Mean I/σ(I) obs: 1.7 / Num. unique obs: 12538 / CC1/2: 0.833 / Rpim(I) all: 0.335 / Rrim(I) all: 0.653 / % possible all: 98.9 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 2NWW Resolution: 3.7→40 Å / Cor.coef. Fo:Fc: 0.904 / Cor.coef. Fo:Fc free: 0.93 / SU B: 93.68 / SU ML: 0.566 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R Free: 0.611 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 325.11 Å2 / Biso mean: 184.509 Å2 / Biso min: 120.59 Å2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3.7→40 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints NCS | Ens-ID: 1 / Refine-ID: X-RAY DIFFRACTION
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 3.7→3.795 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS group |
|