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- PDB-2r8k: Structure of the Eukaryotic DNA Polymerase eta in complex with 1,... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2r8k | ||||||
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Title | Structure of the Eukaryotic DNA Polymerase eta in complex with 1,2-d(GpG)-cisplatin containing DNA | ||||||
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Function / homology | ![]() Translesion Synthesis by POLH / Termination of translesion DNA synthesis / mitotic sister chromatid cohesion / error-free translesion synthesis / error-prone translesion synthesis / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Carell, T. / Alt, A. / Lammens, K. | ||||||
![]() | ![]() Title: Bypass of DNA lesions generated during anticancer treatment with cisplatin by DNA polymerase eta Authors: Alt, A. / Lammens, K. / Chiocchini, C. / Lammens, A. / Pieck, J.C. / Kuch, D. / Hopfner, K.P. / Carell, T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 239.6 KB | Display | ![]() |
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PDB format | ![]() | 187 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 2r8jC ![]() 1jihS 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
-DNA chain , 2 types, 4 molecules QPUT
#1: DNA chain | Mass: 2811.846 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: DNA chain | Mass: 2989.970 Da / Num. of mol.: 2 / Source method: obtained synthetically |
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-Protein , 1 types, 2 molecules AB
#3: Protein | ![]() Mass: 62617.781 Da / Num. of mol.: 2 / Fragment: Catalytic domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Strain: YPH499 (ATCC 76625) / Gene: RAD30, DBH1 / Plasmid: pExp007 / Production host: ![]() ![]() ![]() ![]() |
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-Non-polymers , 3 types, 8 molecules ![](data/chem/img/CPT.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/DTP.gif)
![](data/chem/img/CA.gif)
![](data/chem/img/DTP.gif)
#4: Chemical | ![]() #5: Chemical | ChemComp-CA / #6: Chemical | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.88 Å3/Da / Density % sol: 57.27 % | ||||||||||||||||||||
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Crystal grow![]() | Temperature: 291 K / Method: vapor diffusion, hanging drop Details: 170 mM Calcium chloride, 16% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 291.0K | ||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Feb 5, 2007 |
Radiation | Monochromator: Si / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 3.3→25 Å / Num. all: 24858 / Num. obs: 24858 / % possible obs: 98.4 % / Observed criterion σ(I): -3 / Biso Wilson estimate: 37.602 Å2 / Rsym value: 0.147 / Net I/σ(I): 11.78 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 1JIH Resolution: 3.3→25 Å / Isotropic thermal model: anisotropic / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 35.59 Å2 | ||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.3→25 Å
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Refine LS restraints |
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