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- PDB-8a3g: X-ray crystal structure of a de novo designed antiparallel coiled... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8a3g | |||||||||||||||||||||||||||||||||||||
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Title | X-ray crystal structure of a de novo designed antiparallel coiled-coil homotetramer with 4 heptad repeats, apCC-Tet* | |||||||||||||||||||||||||||||||||||||
![]() | apCC-Tet*![]() DE NOVO PROTEIN / coiled coil / 4-helix bundle / de novo protein design / peptide assembly | Function / homology | ACETATE ION | ![]() Biological species | synthetic construct (others) | Method | ![]() ![]() ![]() Naudin, E.A. / Mylemans, B. / Albanese, K.I. / Woolfson, D.N. | Funding support | | ![]()
![]() ![]() Title: From peptides to proteins: coiled-coil tetramers to single-chain 4-helix bundles. Authors: Naudin, E.A. / Albanese, K.I. / Smith, A.J. / Mylemans, B. / Baker, E.G. / Weiner, O.D. / Andrews, D.M. / Tigue, N. / Savery, N.J. / Woolfson, D.N. History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 37.5 KB | Display | ![]() |
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PDB format | ![]() | 26.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 427.9 KB | Display | ![]() |
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Full document | ![]() | 427.9 KB | Display | |
Data in XML | ![]() | 5 KB | Display | |
Data in CIF | ![]() | 6.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8a3iC ![]() 8a3jC ![]() 8a3kC 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
#1: Protein/peptide | Mass: 3463.076 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) #2: Chemical | ChemComp-ACT / | #3: Chemical | ChemComp-NA / | #4: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.84 Å3/Da / Density % sol: 33.17 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 5 Details: 2.0 M Ammonium sulfate, 0.1 M Sodium acetate, pH 5.0 |
-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 29, 2021 | ||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.85 Å / Relative weight: 1 | ||||||||||||||||||||||||||||||
Reflection | Resolution: 0.96→43.77 Å / Num. obs: 31082 / % possible obs: 96.1 % / Redundancy: 20.8 % / Biso Wilson estimate: 8.99 Å2 / CC1/2: 1 / Rmerge(I) obs: 0.042 / Rpim(I) all: 0.009 / Rrim(I) all: 0.043 / Net I/σ(I): 30.3 / Num. measured all: 645142 / Scaling rejects: 144 | ||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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Processing
Software |
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Refinement | Method to determine structure: AB INITIO PHASING / Resolution: 0.96→26.86 Å / SU ML: 0.05 / Cross valid method: THROUGHOUT / σ(F): 1.97 / Phase error: 15.91 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 39.5 Å2 / Biso mean: 12.7871 Å2 / Biso min: 5.99 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 0.96→26.86 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 11
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