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Open data
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Basic information
Entry | Database: PDB / ID: 8xak | ||||||
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Title | Structure of Pif1-G4 complex | ||||||
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![]() | HYDROLASE/DNA / Pif1 / HYDROLASE / HYDROLASE-DNA complex | ||||||
Function / homology | ADENOSINE-5'-DIPHOSPHATE / TETRAFLUOROALUMINATE ION / : / DNA / DNA (> 10) / : ![]() | ||||||
Biological species | ![]() ![]() synthetic construct (others) | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hong, Z. / Song, H. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Eukaryotic Pif1 helicase unwinds G-quadruplex and dsDNA using a conserved wedge. Authors: Hong, Z. / Byrd, A.K. / Gao, J. / Das, P. / Tan, V.Q. / Malone, E.G. / Osei, B. / Marecki, J.C. / Protacio, R.U. / Wahls, W.P. / Raney, K.D. / Song, 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 | ![]() | 466.2 KB | Display | ![]() |
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PDB format | ![]() | 378.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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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2 | ![]()
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Unit cell |
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Components
-Protein / DNA chain , 2 types, 4 molecules ACDB
#1: Protein | Mass: 61691.918 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: PIF1 / Production host: ![]() ![]() #2: DNA chain | Mass: 10697.805 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
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-Non-polymers , 4 types, 12 molecules 






#3: Chemical | #4: Chemical | #5: Chemical | #6: Chemical | ChemComp-K / |
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-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.39 Å3/Da / Density % sol: 63.73 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 0.1 M MES pH 6.9, 22.5 %(w/v) PEG 400, 0.1 M sodium acetate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Mar 19, 2022 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3.5→48 Å / Num. obs: 22444 / % possible obs: 99.35 % / Redundancy: 1.9 % / CC1/2: 0.904 / Net I/σ(I): 3.05 |
Reflection shell | Resolution: 3.5→3.625 Å / Num. unique obs: 2168 / CC1/2: 0.611 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.5→48 Å
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Refine LS restraints |
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LS refinement shell |
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