+Open data
-Basic information
Entry | Database: PDB / ID: 4zjn | ||||||
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Title | Crystal structure of the bacteriophage G20C portal protein | ||||||
Components | Portal protein | ||||||
Keywords | TRANSPORT PROTEIN / bacteriophage portal protein | ||||||
Function / homology | Portal protein Function and homology information | ||||||
Biological species | Bacteriophage G20C (virus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.98 Å | ||||||
Authors | Williams, L.S. / Turkenburg, J.P. / Levdikov, V.M. / Minakhin, L. / Severinov, K. / Antson, A.A. | ||||||
Funding support | United Kingdom, 1items
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Citation | Journal: To be published Title: Crystal structure of the bacteriophage G20C portal protein Authors: Williams, L.S. / Turkenburg, J.P. / Levdikov, V.M. / Minakhin, L. / Severinov, K. / Antson, A.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4zjn.cif.gz | 492.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4zjn.ent.gz | 406.9 KB | Display | PDB format |
PDBx/mmJSON format | 4zjn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4zjn_validation.pdf.gz | 459.5 KB | Display | wwPDB validaton report |
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Full document | 4zjn_full_validation.pdf.gz | 466.2 KB | Display | |
Data in XML | 4zjn_validation.xml.gz | 46.6 KB | Display | |
Data in CIF | 4zjn_validation.cif.gz | 66.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zj/4zjn ftp://data.pdbj.org/pub/pdb/validation_reports/zj/4zjn | 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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Unit cell |
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-Components
#1: Protein | Mass: 47214.098 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacteriophage G20C (virus) / Production host: Escherichia coli (E. coli) / References: UniProt: A7XXR3 #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.46 Å3/Da / Density % sol: 49.96 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: Protein in 1 M NaCl, 10 mM HEPES pH 7.5. Reservoir: 0.2 M magnesium chloride, 40%(v/v) MPD. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I02 / Wavelength: 0.9795 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jun 22, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 1.98→44.4 Å / Num. all: 98102 / Num. obs: 97710 / % possible obs: 99.6 % / Redundancy: 5.3 % / Rmerge(I) obs: 0.064 / Net I/σ(I): 17.3 |
Reflection shell | Resolution: 1.98→2.01 Å / Redundancy: 5.1 % / Rmerge(I) obs: 0.673 / Mean I/σ(I) obs: 2.3 / Num. measured obs: 4815 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.98→44.4 Å / Cor.coef. Fo:Fc: 0.964 / Cor.coef. Fo:Fc free: 0.951 / SU B: 7.531 / SU ML: 0.108 / Cross valid method: THROUGHOUT / ESU R: 0.148 / ESU R Free: 0.132 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 38.563 Å2
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Refinement step | Cycle: 1 / Resolution: 1.98→44.4 Å
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Refine LS restraints |
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