+Open data
-Basic information
Entry | Database: PDB / ID: 4pnb | ||||||||||||
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Title | A de novo designed hexameric coiled coil CC-Hex3. | ||||||||||||
Components | CC-Hex3 | ||||||||||||
Keywords | DE NOVO PROTEIN / Artificially designed - often synthetic / Alpha-helical barrel / coiled coil / protein design / peptide . | ||||||||||||
Biological species | synthetic construct (others) | ||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.052 Å | ||||||||||||
Authors | Wood, C.W. / Burton, A.J. / Thomson, A.R. / Brady, R.L. / Woolfson, D.N. | ||||||||||||
Funding support | United Kingdom, 3items
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Citation | Journal: Science / Year: 2014 Title: Computational design of water-soluble alpha-helical barrels. Authors: Thomson, A.R. / Wood, C.W. / Burton, A.J. / Bartlett, G.J. / Sessions, R.B. / Brady, R.L. / Woolfson, D.N. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4pnb.cif.gz | 32.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4pnb.ent.gz | 25.3 KB | Display | PDB format |
PDBx/mmJSON format | 4pnb.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4pnb_validation.pdf.gz | 442.2 KB | Display | wwPDB validaton report |
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Full document | 4pnb_full_validation.pdf.gz | 443.2 KB | Display | |
Data in XML | 4pnb_validation.xml.gz | 7.7 KB | Display | |
Data in CIF | 4pnb_validation.cif.gz | 9.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pn/4pnb ftp://data.pdbj.org/pub/pdb/validation_reports/pn/4pnb | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein/peptide | Mass: 3300.863 Da / Num. of mol.: 4 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.25 Å3/Da / Density % sol: 45.34 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop / pH: 5.5 Details: 0.2 M ammonium sulfate, 0.1 M sodium acetate, 10 % w/v PEG 2000 MME. |
-Data collection
Diffraction | Mean temperature: 90 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04 / Wavelength: 0.98 Å |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Feb 9, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 2.05→44.61 Å / Num. obs: 7572 / % possible obs: 100 % / Redundancy: 13.7 % / Net I/σ(I): 14.5 |
Reflection shell | Resolution: 2.05→2.11 Å / Redundancy: 13 % / Rmerge(I) obs: 0.701 / Mean I/σ(I) obs: 3.9 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.052→44.6 Å / SU ML: 0.28 / Cross valid method: FREE R-VALUE / σ(F): 1.37 / Phase error: 32.97 / 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 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.052→44.6 Å
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Refine LS restraints |
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LS refinement shell |
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