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- PDB-6xzt: Crystal structure of helicase Pif1 from Thermus oshimai mutant G1... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6xzt | ||||||
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Title | Crystal structure of helicase Pif1 from Thermus oshimai mutant G110C-E410C | ||||||
![]() | PIF1 helicase | ||||||
![]() | HYDROLASE / DNA helicase | ||||||
Function / homology | DNA helicase Pif1-like / PIF1-like helicase / DNA helicase activity / telomere maintenance / DNA repair / nucleotide binding / P-loop containing nucleoside triphosphate hydrolase / metal ion binding / PIF1 helicase![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Dai, Y.X. / Chen, W.F. / Teng, F.Y. / Liu, N.N. / Hou, X.M. / Dou, S.X. / Rety, S. / Xi, X.G. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structural and functional studies of SF1B Pif1 from Thermus oshimai reveal dimerization-induced helicase inhibition. Authors: Dai, Y.X. / Chen, W.F. / Liu, N.N. / Teng, F.Y. / Guo, H.L. / Hou, X.M. / Dou, S.X. / Rety, S. / Xi, X.G. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 185 KB | Display | ![]() |
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PDB format | ![]() | 145.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 443.8 KB | Display | ![]() |
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Full document | ![]() | 465 KB | Display | |
Data in XML | ![]() | 33.4 KB | Display | |
Data in CIF | ![]() | 44.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6s3eSC ![]() 6s3hC ![]() 6s3iC ![]() 6s3mC ![]() 6s3nC ![]() 6s3oC ![]() 6s3pC ![]() 7adaC ![]() 7bilC 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
#1: Protein | Mass: 50691.176 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() References: UniProt: K7RJ88 |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.53 Å3/Da / Density % sol: 51.4 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: ethylene glycol 1.25% PEG 4000 20% glycerol 20% Sodium Hepes- MOPS 0.1M pH 7.5 |
-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: Jan 16, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97891 Å / Relative weight: 1 |
Reflection | Resolution: 3.341→52.55 Å / Num. obs: 15002 / % possible obs: 99.57 % / Observed criterion σ(I): 2 / Redundancy: 6.9 % / Biso Wilson estimate: 138.14 Å2 / CC1/2: 0.998 / CC star: 1 / Rmerge(I) obs: 0.0492 / Rpim(I) all: 0.0209 / Rrim(I) all: 0.05357 / Net I/σ(I): 24.54 |
Reflection shell | Resolution: 3.341→3.46 Å / Redundancy: 7.1 % / Rmerge(I) obs: 0.5995 / Mean I/σ(I) obs: 2.79 / Num. unique obs: 1498 / CC1/2: 0.922 / CC star: 0.979 / Rpim(I) all: 0.2415 / Rrim(I) all: 0.647 / % possible all: 99.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6S3E Resolution: 3.341→52.55 Å / Cross valid method: FREE R-VALUE
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Displacement parameters | Biso mean: 154.1 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.341→52.55 Å
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Refine LS restraints |
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