+Open data
-Basic information
Entry | Database: PDB / ID: 5zw5 | ||||||
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Title | Structure of SeMet-spAimR | ||||||
Components | AimR transcriptional regulator | ||||||
Keywords | TRANSCRIPTION REGULATOR / dimer / SPbeta phage | ||||||
Function / homology | : / latency-replication decision / AimR transcriptional regulator Function and homology information | ||||||
Biological species | Bacillus phage SPbeta (virus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.4 Å | ||||||
Authors | Cheng, W. / Dou, C. | ||||||
Citation | Journal: Nat Microbiol / Year: 2018 Title: Structural and functional insights into the regulation of the lysis-lysogeny decision in viral communities. Authors: Dou, C. / Xiong, J. / Gu, Y. / Yin, K. / Wang, J. / Hu, Y. / Zhou, D. / Fu, X. / Qi, S. / Zhu, X. / Yao, S. / Xu, H. / Nie, C. / Liang, Z. / Yang, S. / Wei, Y. / Cheng, W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5zw5.cif.gz | 166.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5zw5.ent.gz | 138 KB | Display | PDB format |
PDBx/mmJSON format | 5zw5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 5zw5_validation.pdf.gz | 433.4 KB | Display | wwPDB validaton report |
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Full document | 5zw5_full_validation.pdf.gz | 439.1 KB | Display | |
Data in XML | 5zw5_validation.xml.gz | 29.4 KB | Display | |
Data in CIF | 5zw5_validation.cif.gz | 41.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zw/5zw5 ftp://data.pdbj.org/pub/pdb/validation_reports/zw/5zw5 | HTTPS FTP |
-Related 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: 45849.477 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacillus phage SPbeta (virus) / Gene: aimR, yopK / Production host: Escherichia coli K-12 (bacteria) / Strain (production host): K-12 / References: UniProt: O64094 #2: 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: 2.34 Å3/Da / Density % sol: 47.49 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / Details: 0.2 M CaAc2, 20% PE G3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL19U1 / Wavelength: 0.97776 Å |
Detector | Type: DECTRIS PILATUS3 R 1M / Detector: PIXEL / Date: Jul 11, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97776 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→50 Å / Num. obs: 34984 / % possible obs: 99.94 % / Redundancy: 11.7 % / Net I/σ(I): 3.16 |
Reflection shell | Resolution: 2.4→2.486 Å |
-Processing
Software |
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Refinement | Resolution: 2.4→47.811 Å / SU ML: 0.29 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 24.94
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→47.811 Å
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Refine LS restraints |
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LS refinement shell |
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