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Open data
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Basic information
Entry | Database: PDB / ID: 7p0j | |||||||||
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Title | Crystal structure of S.pombe Mdb1 BRCT domains | |||||||||
![]() | DNA damage response protein Mdb1 | |||||||||
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Function / homology | ![]() mitotic spindle midzone / mitotic G2 DNA damage checkpoint signaling / site of double-strand break / ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Day, M. / Oliver, A.W. / Pearl, L.H. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Phosphorylation-dependent assembly of DNA damage response systems and the central roles of TOPBP1. Authors: Day, M. / Oliver, A.W. / Pearl, L.H. #1: Journal: Acta Crystallogr., Sect. D: Biol. Crystallogr. / Year: 2012 Title: Towards automated crystallographic structure refinement with phenix.refine. Authors: Afonine, P.V. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 119 KB | Display | ![]() |
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PDB format | ![]() | 74.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7p0lC C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 22696.945 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Strain: 972 / ATCC 24843 / Gene: mdb1, SPAC2E11.14, SPACUNK4.14 / Production host: ![]() ![]() ![]() | ||||||
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#2: Chemical | ChemComp-CIT / ![]() | ||||||
#3: Chemical | #4: Chemical | ChemComp-MG / | #5: Water | ChemComp-HOH / | ![]() Has ligand of interest | N | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.76 Å3/Da / Density % sol: 55.5 % |
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Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion, sitting drop Details: 0.2 M sodium citrate 0.1 M Bis Tris propane 7.5 20 % w/v PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Aug 11, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.48→49.82 Å / Num. obs: 41143 / % possible obs: 99.1 % / Redundancy: 3.2 % / Biso Wilson estimate: 17.83 Å2 / Rpim(I) all: 0.036 / Net I/σ(I): 1.306 |
Reflection shell | Resolution: 1.48→1.52 Å / Num. unique obs: 3071 / Rpim(I) all: 0.519 |
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Processing
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Refinement | Method to determine structure![]() ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 22.27 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.48→49.82 Å
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Refine LS restraints |
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LS refinement shell |
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