+Open data
-Basic information
Entry | Database: PDB / ID: 6jmg | ||||||
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Title | Crystal structure of xRbj | ||||||
Components | DnaJ homolog subfamily C member 27-A | ||||||
Keywords | HYDROLASE / small GTPase | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Xenopus laevis (African clawed frog) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.701 Å | ||||||
Authors | Gao, Z.R. / Qi, J.X. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: Crystal structure of Rbj Authors: Gao, Z.R. / Qi, J.X. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6jmg.cif.gz | 227.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6jmg.ent.gz | 183.8 KB | Display | PDB format |
PDBx/mmJSON format | 6jmg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6jmg_validation.pdf.gz | 1 MB | Display | wwPDB validaton report |
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Full document | 6jmg_full_validation.pdf.gz | 1 MB | Display | |
Data in XML | 6jmg_validation.xml.gz | 21.6 KB | Display | |
Data in CIF | 6jmg_validation.cif.gz | 28.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jm/6jmg ftp://data.pdbj.org/pub/pdb/validation_reports/jm/6jmg | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 31997.588 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Xenopus laevis (African clawed frog) / Gene: dnajc27-a, rbj-a, rbj1 / Production host: Escherichia coli (E. coli) / References: UniProt: Q7ZYF1 #2: Chemical | #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 4.15 Å3/Da / Density % sol: 70.36 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop Details: 0.1M Bis-Tris pH 6.5, 28% (w/v) Polyethylene glycol monomethyl ether 2000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL19U1 / Wavelength: 0.9791 Å |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Sep 1, 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: 2.7→50 Å / Num. obs: 31168 / % possible obs: 99.9 % / Redundancy: 19.6 % / Net I/σ(I): 30.1 |
Reflection shell | Resolution: 2.7→2.8 Å |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.701→50 Å / SU ML: 0.34 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 26.5
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.701→50 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 7.6331 Å / Origin y: 32.3181 Å / Origin z: -45.4079 Å
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Refinement TLS group | Selection details: all |