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- PDB-8chy: Crystal structure of an 8-repeat consensus TPR superhelix with Zinc. -
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Open data
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Basic information
Entry | Database: PDB / ID: 8chy | ||||||
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Title | Crystal structure of an 8-repeat consensus TPR superhelix with Zinc. | ||||||
![]() | Crystal structure of an 8-repeat consensus TPR superhelix with Zinc. | ||||||
![]() | DE NOVO PROTEIN / CTPR / polymorphism / metal coordination | ||||||
Function / homology | ACETATE ION![]() | ||||||
Biological species | synthetic construct (others) | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Liutkus, M. / Rojas, A.L. / Cortajarena, A.L. | ||||||
Funding support | European Union, 1items
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![]() | ![]() Title: Diverse crystalline protein scaffolds through metal-dependent polymorphism. Authors: Liutkus, M. / Sasselli, I.R. / Rojas, A.L. / Cortajarena, A.L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 72.8 KB | Display | ![]() |
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PDB format | ![]() | 53.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 457.8 KB | Display | ![]() |
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Full document | ![]() | 459.6 KB | Display | |
Data in XML | ![]() | 12 KB | Display | |
Data in CIF | ![]() | 16.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8bu0C ![]() 8ch0C ![]() 8cigC ![]() 8ckrC ![]() 8cmqC ![]() 8cp8C ![]() 8cqpC ![]() 8cqqC ![]() 8ot7C 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
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 34186.594 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) synthetic construct (others) / Production host: ![]() ![]() |
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-Non-polymers , 5 types, 48 molecules ![](data/chem/img/ZN.gif)
![](data/chem/img/ACT.gif)
![](data/chem/img/MPD.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/ACT.gif)
![](data/chem/img/MPD.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-ZN / #3: Chemical | ChemComp-ACT / #4: Chemical | ChemComp-MPD / ( | #5: Chemical | ChemComp-CL / | #6: Water | ChemComp-HOH / | |
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-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.76 Å3/Da / Density % sol: 55.48 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion / pH: 5.5 / Details: 20mM ZnCl2 100mM NaOAc 30% MPD |
-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: Dec 8, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.28195 Å / Relative weight: 1 |
Reflection | Resolution: 2→49.92 Å / Num. obs: 27290 / % possible obs: 100 % / Redundancy: 35.9 % / CC1/2: 0.999 / Rpim(I) all: 0.029 / Rrim(I) all: 0.172 / Net I/σ(I): 14.5 / Num. measured all: 981062 |
Reflection shell | Resolution: 2→2.11 Å / % possible obs: 99.9 % / Redundancy: 36.5 % / Num. measured all: 140812 / Num. unique obs: 3862 / CC1/2: 0.734 / Rpim(I) all: 1.427 / Rrim(I) all: 8.666 / Net I/σ(I) obs: 1.3 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 51.159 Å2
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Refinement step | Cycle: 1 / Resolution: 2→49.92 Å
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Refine LS restraints |
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