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- PDB-6hm3: Crystal structure of Rad4 BRCT1,2 in complex with a Sld3 phosphop... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6hm3 | ||||||
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Title | Crystal structure of Rad4 BRCT1,2 in complex with a Sld3 phosphopeptide | ||||||
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![]() | CELL CYCLE / BRCT domain phosphopeptide recognition | ||||||
Function / homology | ![]() mitotic spindle pole body / mitotic DNA damage checkpoint signaling / chromatin => GO:0000785 / DNA replication preinitiation complex / mitotic DNA replication checkpoint signaling / mitotic DNA replication initiation / mitotic G2 DNA damage checkpoint signaling / DNA replication initiation / signaling adaptor activity / meiotic cell cycle ...mitotic spindle pole body / mitotic DNA damage checkpoint signaling / chromatin => GO:0000785 / DNA replication preinitiation complex / mitotic DNA replication checkpoint signaling / mitotic DNA replication initiation / mitotic G2 DNA damage checkpoint signaling / DNA replication initiation / signaling adaptor activity / meiotic cell cycle / mitotic spindle / site of double-strand break / chromatin / nucleus / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Day, M. / Rappas, M. / Oliver, A.W. / Pearl, L.H. | ||||||
Funding support | ![]()
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![]() | ![]() Title: BRCT domains of the DNA damage checkpoint proteins TOPBP1/Rad4 display distinct specificities for phosphopeptide ligands. Authors: Day, M. / Rappas, M. / Ptasinska, K. / Boos, D. / Oliver, A.W. / Pearl, L.H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 75.4 KB | Display | ![]() |
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PDB format | ![]() | 44.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 449.6 KB | Display | ![]() |
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Full document | ![]() | 450.8 KB | Display | |
Data in XML | ![]() | 13.1 KB | Display | |
Data in CIF | ![]() | 18.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6hm4C ![]() 6hm5C ![]() 4bmcS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 21236.457 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: 972 / ATCC 24843 / Gene: rad4, cut5, SPAC23C4.18c / Production host: ![]() ![]() | ||||
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#2: Protein/peptide | Mass: 3411.644 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() | ||||
#3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.94 Å3/Da / Density % sol: 58.22 % |
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Crystal grow | Temperature: 287.15 K / Method: vapor diffusion, sitting drop / Details: Unknown |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Oct 29, 2011 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 1.77→42.2041207773 Å / Num. obs: 27589 / % possible obs: 98.3 % / Redundancy: 2.9 % / Biso Wilson estimate: 26.18 Å2 / Net I/σ(I): 15.7 |
Reflection shell | Resolution: 1.77→1.82 Å |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4BMC Resolution: 1.77263620528→42.2041207773 Å / SU ML: 0.198039347248 / Cross valid method: FREE R-VALUE / σ(F): 1.3502924511 / Phase error: 24.8970812351 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: 34.5473330333 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.77263620528→42.2041207773 Å
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Refine LS restraints |
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LS refinement shell |
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