+Open data
-Basic information
Entry | Database: PDB / ID: 5xbn | ||||||
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Title | crystal structure of Wss1 from saccharomyces cerevisiae | ||||||
Components | Wss1p | ||||||
Keywords | HYDROLASE / protease | ||||||
Function / homology | : Function and homology information | ||||||
Biological species | Saccharomyces cerevisiae FostersO (yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.761 Å | ||||||
Authors | Dong, Y.H. / Yang, X.Y. / Wang, W.J. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: crystal structure of Wss1 from saccharomyces cerevisiae Authors: Dong, Y.H. / Yang, X.Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5xbn.cif.gz | 38.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5xbn.ent.gz | 28.8 KB | Display | PDB format |
PDBx/mmJSON format | 5xbn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xb/5xbn ftp://data.pdbj.org/pub/pdb/validation_reports/xb/5xbn | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 17657.355 Da / Num. of mol.: 1 / Fragment: UNP residues 1-148 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae FostersO (yeast) Strain: FostersO / Gene: FOSTERSO_2154 / Production host: Escherichia coli (E. coli) / References: UniProt: E7NIN2 |
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#2: Chemical | ChemComp-ZN / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.02 Å3/Da / Density % sol: 39.16 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / Details: 20%(w/v) PEG-3500, 8%(v/v) Tacsimate, pH 7.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 0.9793 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: May 20, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 1.76→50 Å / Num. obs: 28156 / % possible obs: 99.9 % / Redundancy: 21.5 % / Net I/σ(I): 82.913 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.761→37.597 Å / SU ML: 0.17 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 21.31 Details: AUTHORS TREATED THE DATA SET AS AN ANOMALOUS ONE IN REFINEMENT, HOWEVER, IT WAS TREATED AS A NATIVE ONE IN DATA COLLECTION STATISTICS.
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.761→37.597 Å
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Refine LS restraints |
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LS refinement shell |
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