☰ Navigation Tabs
Photodissociable dimeric Dronpa green fluorescent protein variant V (pdDronpaV)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z6Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 0.1 M BIS-TRIS pH 6.5, 2 M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 1.85 33.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.917 α = 90 b = 51.917 β = 90 c = 163.581 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2014-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.9794 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.83 50 99.9 0.112 23.6 13.4 5835
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.83 2.88 98.9 0.057 5.2 13.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT NONE 2Z6Y 2.83 43.83 1.37 5835 266 100 0.197 0.195 0.2055 0.247 0.257
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.429 f_angle_d 1.396 f_chiral_restr 0.049 f_bond_d 0.009 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1717 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms 10
Software Software Software Name Purpose PHENIX refinement Coot model building HKL-2000 data reduction HKL-2000 data scaling PHASER phasing