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Open data
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Basic information
Entry | Database: PDB / ID: 7vp2 | |||||||||
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Title | Structure of a transcription factor and DNA complex | |||||||||
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Function / homology | ![]() leaf senescence / leaf development / DNA-binding transcription factor activity / regulation of DNA-templated transcription / ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() synthetic construct (others) | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Zhang, Y. / Xu, Y.P. / Wang, B. / Su, X.D. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structural basis for DNA recognition by TCP transcription factors Authors: Zhang, Y. / Xu, Y.P. / Wang, B. / Su, X.D. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 109.6 KB | Display | ![]() |
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PDB format | ![]() | 79.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7vp1SC ![]() 7vp3C ![]() 7vp4C ![]() 7vp5C ![]() 7vp6C ![]() 7vp7C S: Starting model for refinement 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: 11886.519 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() #2: DNA chain | | Mass: 4231.753 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) #3: DNA chain | | Mass: 4329.830 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) #4: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.98 Å3/Da / Density % sol: 37.91 % |
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Crystal grow![]() | Temperature: 291 K / Method: vapor diffusion, sitting drop / Details: 10% (w/v) PEG 1000, 10% (w/v) PEG 8000 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 4M / Detector: PIXEL / Date: Mar 16, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.92→44.723 Å / Num. obs: 19285 / % possible obs: 99.77 % / Redundancy: 6.2 % / CC1/2: 0.996 / Rmerge(I) obs: 0.1028 / Rpim(I) all: 0.04303 / Rrim(I) all: 0.1116 / Net I/σ(I): 13.65 |
Reflection shell | Resolution: 1.92→1.989 Å / Rmerge(I) obs: 0.4344 / Num. unique obs: 1888 / CC1/2: 0.866 / Rpim(I) all: 0.2063 / Rrim(I) all: 0.4821 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 7VP1 Resolution: 1.92→44.72 Å / Cross valid method: THROUGHOUT
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Displacement parameters | Biso max: 99.89 Å2 / Biso mean: 34.7313 Å2 / Biso min: 12.91 Å2 | ||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.92→44.72 Å
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