☰ Navigation Tabs
Structure of the Fragaria x ananassa enone oxidoreductase in complex with NADPH and HMF
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4IDC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 19% (w/v) PEG3350, 0.2M Li2SO4, 0.1M Tris/HCl pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.05 59.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.263 α = 90 b = 70.263 β = 90 c = 175.095 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 CCD RAYONIX MX-225 2011-04-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
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 1.55 30 100 0.062 26.96 9.68 64541 64541 -3 -3 23.081
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.65 100 0.668 0.704 3.84
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 THROUGHOUT 4IDC 1.55 29.59 64541 64541 1961 99.94 0.1418 0.1418 0.1412 0.1404 0.1628 0.1624 RANDOM 19.684
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] 0.21 0.21 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.88 r_dihedral_angle_4_deg 19.996 r_dihedral_angle_3_deg 11.562 r_dihedral_angle_1_deg 6.673 r_angle_refined_deg 1.955 r_angle_other_deg 0.875 r_chiral_restr 0.125 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.88 r_dihedral_angle_4_deg 19.996 r_dihedral_angle_3_deg 11.562 r_dihedral_angle_1_deg 6.673 r_angle_refined_deg 1.955 r_angle_other_deg 0.875 r_chiral_restr 0.125 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2405 Nucleic Acid Atoms Solvent Atoms 490 Heterogen Atoms 69
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction MxCuBE data collection XDS data reduction PHASER phasing