+Open data
-Basic information
Entry | Database: PDB / ID: 6r5j | ||||||
---|---|---|---|---|---|---|---|
Title | New MAX Effector from Magnaporthe oryzae | ||||||
Components | Uncharacterized protein | ||||||
Keywords | IMMUNOSUPPRESSANT / Max effector NMR | ||||||
Function / homology | ToxB-like N-terminal, ascomycota / ToxB N-terminal domain / ToxB_N domain-containing protein Function and homology information | ||||||
Biological species | Magnaporthe oryzae (rice blast fungus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.38 Å | ||||||
Authors | Hoh, F. / Padilla, A. / De Guillen, K. | ||||||
Funding support | France, 1items
| ||||||
Citation | Journal: To Be Published Title: New MAX Effector from Magnaporthe oryzae Authors: Hoh, F. / Padilla, A. / De Guillen, K. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 6r5j.cif.gz | 43 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb6r5j.ent.gz | 28.7 KB | Display | PDB format |
PDBx/mmJSON format | 6r5j.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6r5j_validation.pdf.gz | 652.7 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 6r5j_full_validation.pdf.gz | 652.8 KB | Display | |
Data in XML | 6r5j_validation.xml.gz | 8.6 KB | Display | |
Data in CIF | 6r5j_validation.cif.gz | 11.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/r5/6r5j ftp://data.pdbj.org/pub/pdb/validation_reports/r5/6r5j | HTTPS FTP |
-Related structure data
Similar structure data |
---|
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 7034.701 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Magnaporthe oryzae (strain P131) (fungus) Strain: P131 / Gene: OOW_P131scaffold00585g1 / Production host: Escherichia coli (E. coli) / References: UniProt: L7J9X7 #2: Chemical | ChemComp-P6G / | #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.43 % |
---|---|
Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop Details: 0,1M Hepes pH 7.5 1.6M Ammonium Sulfate 1,6M PEG 1000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: MASSIF-1 / Wavelength: 1 Å |
Detector | Type: DECTRIS PILATUS3 2M / Detector: PIXEL / Date: Apr 18, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.38→34.59 Å / Num. obs: 59102 / % possible obs: 93.7 % / Redundancy: 2.5 % / Net I/σ(I): 14 |
Reflection shell | Resolution: 1.38→1.43 Å / Num. unique obs: 2877 |
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: NMR model Resolution: 1.38→34.589 Å / SU ML: 0.1 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 17.59
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 102.33 Å2 / Biso mean: 15.0328 Å2 / Biso min: 6.57 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.38→34.589 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0
|