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Yorodumi- PDB-4bg7: Bacteriophage T5 Homolog of the Eukaryotic Transcription Coactiva... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4bg7 | ||||||
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Title | Bacteriophage T5 Homolog of the Eukaryotic Transcription Coactivator PC4 Implicated in Recombination-Dependent DNA Replication | ||||||
Components | PUTATIVE TRANSCRIPTIONAL COACTIVATOR P15 | ||||||
Keywords | REPLICATION / RECOMBINATION / REPAIR / TRANSCRIPTION / SSB | ||||||
Function / homology | Function and homology information | ||||||
Biological species | ENTEROBACTERIA PHAGE T5 (virus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SIRAS / Resolution: 1.9 Å | ||||||
Authors | Steigemann, B. / Schulz, A. / Hinrichs, W. / Werten, S. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2013 Title: Bacteriophage T5 Encodes a Homolog of the Eukaryotic Transcription Coactivator Pc4 Implicated in Recombination-Dependent DNA Replication. Authors: Steigemann, B. / Schulz, A. / Werten, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4bg7.cif.gz | 50.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4bg7.ent.gz | 38 KB | Display | PDB format |
PDBx/mmJSON format | 4bg7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bg/4bg7 ftp://data.pdbj.org/pub/pdb/validation_reports/bg/4bg7 | 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: 12054.358 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ENTEROBACTERIA PHAGE T5 (virus) / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: Q6QGH2 #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: 2.12 Å3/Da / Density % sol: 41.9 % / Description: NONE |
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Crystal grow | pH: 6.5 Details: 100 MM SODIUM ACETATE PH 6.5, 20% PEG 4000, 8% ISOPROPANOL |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: BESSY / Beamline: 14.2 / Wavelength: 0.91841 |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Apr 28, 2011 / Details: MIRRORS |
Radiation | Monochromator: SI(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→50 Å / Num. obs: 16230 / % possible obs: 100 % / Observed criterion σ(I): -3 / Redundancy: 11.4 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 36.3 |
Reflection shell | Resolution: 1.9→1.97 Å / Redundancy: 6.7 % / Rmerge(I) obs: 0.39 / Mean I/σ(I) obs: 4.4 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SIRAS Starting model: NONE Resolution: 1.9→50 Å / Cor.coef. Fo:Fc: 0.96 / Cor.coef. Fo:Fc free: 0.944 / SU B: 4.193 / SU ML: 0.122 / Cross valid method: THROUGHOUT / ESU R: 0.165 / ESU R Free: 0.162 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY
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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: 31.255 Å2
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Refinement step | Cycle: LAST / Resolution: 1.9→50 Å
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Refine LS restraints |
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