☰ Navigation Tabs
Eukaryotic Class II CPD photolyase structure reveals a basis for improved UV-tolerance in plants
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DNP PDB entries 1DNP, 1QNF, and 1IQR experimental model PDB 1QNF PDB entries 1DNP, 1QNF, and 1IQR experimental model PDB 1IQR PDB entries 1DNP, 1QNF, and 1IQR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 298 35% PEG 4K, 5% saturated Urea,
200 mM immidazole malate , pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.51 50.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.351 α = 90 b = 109.362 β = 93.59 c = 97.742 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 2004-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.979764 ALS 5.0.3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.7 50 98.5 0.056 0.056 23.1 4 119326 119326
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.76 98 0.341 0.341 2.87
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB entries 1DNP, 1QNF, and 1IQR 1.705 45.555 0.03 119326 105749 1784 86.9 0.1816 0.181 0.1769 0.2166 0.2137 random
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] 7.2594 -3.9218 -4.7982 -2.4613
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.67 f_angle_d 1.052 f_chiral_restr 0.071 f_bond_d 0.006 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7448 Nucleic Acid Atoms Solvent Atoms 1289 Heterogen Atoms 166
Software Software Software Name Purpose ADSC data collection AMoRE phasing PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling