+Open data
-Basic information
Entry | Database: PDB / ID: 5mnt | ||||||
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Title | Bacteriophage Qbeta maturation protein | ||||||
Components | A2 maturation protein | ||||||
Keywords | RNA BINDING PROTEIN / virus attachment / minor capsid protein | ||||||
Function / homology | Function and homology information suppression by virus of host cell wall biogenesis / suppression by virus of host peptidoglycan biosynthetic process / viral release via suppression of host peptidoglycan biosynthetic process / virion attachment to host cell pilus / adhesion receptor-mediated virion attachment to host cell / viral release from host cell by cytolysis / virion component / symbiont entry into host cell Similarity search - Function | ||||||
Biological species | Enterobacteria phage Qbeta (virus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 3.32 Å | ||||||
Authors | Rumnieks, J. / Tars, K. | ||||||
Citation | Journal: J. Mol. Biol. / Year: 2017 Title: Crystal Structure of the Maturation Protein from Bacteriophage Q beta. Authors: Rumnieks, J. / Tars, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5mnt.cif.gz | 339.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5mnt.ent.gz | 279.9 KB | Display | PDB format |
PDBx/mmJSON format | 5mnt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mn/5mnt ftp://data.pdbj.org/pub/pdb/validation_reports/mn/5mnt | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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Unit cell |
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-Components
#1: Protein | Mass: 48626.012 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Enterobacteria phage Qbeta (virus) / Production host: Escherichia coli BL21 (bacteria) / Variant (production host): AI / References: UniProt: Q8LTE2 |
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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: 5.97 Å3/Da / Density % sol: 79.39 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 40 mM potassium dihydrogen phosphate, 17% PEG 8000, 20% glycerol |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: MAX II / Beamline: I911-3 / Wavelength: 1 Å |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Feb 15, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3.32→176.74 Å / Num. all: 256850 / Num. obs: 67077 / % possible obs: 97.1 % / Redundancy: 3.8 % / CC1/2: 0.983 / Rmerge(I) obs: 0.176 / Net I/σ(I): 8.74 |
Reflection shell | Resolution: 3.32→3.52 Å / Redundancy: 3.8 % / Rmerge(I) obs: 0.913 / Mean I/σ(I) obs: 1.42 / CC1/2: 0.518 / % possible all: 95.1 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 3.32→176.74 Å / Cor.coef. Fo:Fc: 0.922 / Cor.coef. Fo:Fc free: 0.88 / SU B: 32.667 / SU ML: 0.446 / Cross valid method: THROUGHOUT / ESU R: 0.994 / ESU R Free: 0.444 / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 96.203 Å2
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Refinement step | Cycle: 1 / Resolution: 3.32→176.74 Å
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