+Open data
-Basic information
Entry | Database: PDB / ID: 3st4 | ||||||
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Title | Dreiklang - on state | ||||||
Components | Dreiklang | ||||||
Keywords | FLUORESCENT PROTEIN / GFP-like / beta barrel / Reversibly switchable fluorescent protein / Anthozoa / fluorescent dyes / luminescent protein | ||||||
Function / homology | Green Fluorescent Protein / Green fluorescent protein / Beta Barrel / Mainly Beta / PHOSPHATE ION Function and homology information | ||||||
Biological species | Aequorea victoria (jellyfish) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2 Å | ||||||
Authors | Brakemann, T. / Weber, G. / Andresen, M. / Stiel, A.C. / Jakobs, S. / Wahl, M.C. | ||||||
Citation | Journal: Nat.Biotechnol. / Year: 2011 Title: A reversibly photoswitchable GFP-like protein with fluorescence excitation decoupled from switching. Authors: Brakemann, T. / Stiel, A.C. / Weber, G. / Andresen, M. / Testa, I. / Grotjohann, T. / Leutenegger, M. / Plessmann, U. / Urlaub, H. / Eggeling, C. / Wahl, M.C. / Hell, S.W. / Jakobs, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3st4.cif.gz | 304.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3st4.ent.gz | 259.8 KB | Display | PDB format |
PDBx/mmJSON format | 3st4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/st/3st4 ftp://data.pdbj.org/pub/pdb/validation_reports/st/3st4 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 28540.246 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Aequorea victoria (jellyfish) / Plasmid: pQE31 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 #2: Chemical | ChemComp-PO4 / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.2 Å3/Da / Density % sol: 44.16 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 4.6 Details: 15 % (w/v) PEG 3350, 0.2M KH2PO4, 3% (w/v) D-trehalose dihydrate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: BESSY / Beamline: 14.2 / Wavelength: 0.91841 Å |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Mar 16, 2010 |
Radiation | Monochromator: Si-111 crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. all: 51879 / Num. obs: 51771 / % possible obs: 99.8 % / Observed criterion σ(F): 3 / Observed criterion σ(I): 3 / Rmerge(I) obs: 0.064 |
Reflection shell | Resolution: 2→2.1 Å / Rmerge(I) obs: 0.49 / Mean I/σ(I) obs: 3 / Num. unique all: 6929 / % possible all: 99.9 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2→41.441 Å / SU ML: 0.23 / σ(F): 1.99 / Phase error: 19.58 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.8 Å / VDW probe radii: 1 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 43.24 Å2 / ksol: 0.335 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2→41.441 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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