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Crystal structure of fad quinone reductase 2 in complex with melatonin at 1.4A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QWX pdb entry 2QWX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 0.1M HEPES PH7, 1.4M AmSO4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.43 49.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.56 α = 90 b = 83.4 β = 90 c = 106.86 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 PIXEL PSI PILATUS 6M 2013-03-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.9997 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.4 46.81 97.95 93437 93437
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.48 92.6 1.61 14884
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 (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 pdb entry 2QWX 1.4 46.81 98356 93437 4918 97.95 0.19295 0.19127 0.1941 0.22506 0.2228 RANDOM 21.487
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] 0.82 0.14 -0.96
RMS Deviations Key Refinement Restraint Deviation r_sphericity_bonded 41.687 r_dihedral_angle_2_deg 35.818 r_dihedral_angle_4_deg 18.418 r_dihedral_angle_3_deg 13.224 r_dihedral_angle_1_deg 6.697 r_long_range_B_refined 6.263 r_long_range_B_other 6.263 r_rigid_bond_restr 5.905 r_scangle_other 4.369 r_mcangle_it 3.36
RMS Deviations Key Refinement Restraint Deviation r_sphericity_bonded 41.687 r_dihedral_angle_2_deg 35.818 r_dihedral_angle_4_deg 18.418 r_dihedral_angle_3_deg 13.224 r_dihedral_angle_1_deg 6.697 r_long_range_B_refined 6.263 r_long_range_B_other 6.263 r_rigid_bond_restr 5.905 r_scangle_other 4.369 r_mcangle_it 3.36 r_mcangle_other 3.351 r_scbond_it 3.137 r_scbond_other 3.136 r_mcbond_it 2.607 r_mcbond_other 2.606 r_angle_refined_deg 2.481 r_angle_other_deg 1.05 r_chiral_restr 0.147 r_bond_refined_d 0.026 r_gen_planes_refined 0.012 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_sphericity_free
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3618 Nucleic Acid Atoms Solvent Atoms 360 Heterogen Atoms 142
Software Software Software Name Purpose XDS data scaling MOLREP phasing REFMAC refinement XDS data reduction