☰ Navigation Tabs
FAD-dependent oxidoreductase from Chaetomium thermophilum in complex with fragment (4-methoxycarbonylphenyl)methylazanium
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6ZE2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293.15 17 % (w/v) PEG MME 5000, 0.1 M sodium acetate pH 5.5, 0.16 M magnesium formate, protein concentration 8 mg/ml
Crystal Properties Matthews coefficient Solvent content 2.34 47.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.683 α = 90 b = 115.585 β = 90 c = 46.605 γ = 90
Symmetry Space Group P 21 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 2M 2019-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.9184 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.22 43.261 99.9 0.167 0.18 0.066 0.996 8.3 7.3 30083 -3.7 33.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.22 2.29 100 1.147 1.23 0.441 0.646 1.8 7.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 6ZE2 2.22 43.261 30028 1503 99.834 0.18 0.1798 0.17828 0.1859 0.25488 0.2026 random selection 41.298
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] -1.653 -1.162 2.815
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.535 r_dihedral_angle_4_deg 17.053 r_dihedral_angle_3_deg 13.275 r_dihedral_angle_1_deg 8.139 r_lrange_it 7.335 r_lrange_other 7.327 r_scangle_it 5.594 r_scangle_other 5.593 r_mcangle_it 5.14 r_mcangle_other 5.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.535 r_dihedral_angle_4_deg 17.053 r_dihedral_angle_3_deg 13.275 r_dihedral_angle_1_deg 8.139 r_lrange_it 7.335 r_lrange_other 7.327 r_scangle_it 5.594 r_scangle_other 5.593 r_mcangle_it 5.14 r_mcangle_other 5.14 r_scbond_it 3.838 r_scbond_other 3.835 r_mcbond_it 3.692 r_mcbond_other 3.691 r_angle_refined_deg 1.738 r_angle_other_deg 1.296 r_nbd_other 0.269 r_symmetry_xyhbond_nbd_refined 0.199 r_symmetry_nbd_refined 0.197 r_nbd_refined 0.196 r_symmetry_nbd_other 0.196 r_xyhbond_nbd_refined 0.169 r_nbtor_refined 0.163 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.074 r_symmetry_xyhbond_nbd_other 0.054 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4461 Nucleic Acid Atoms Solvent Atoms 310 Heterogen Atoms 154
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing