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rsKiiro Thermal annealing at 290K of 200K Cis intermediate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5OQ9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 8.4 293 0.2 M LITHIUM SULFATE 0.1 M TRIS-CL PH 8.5 23-30% PEG 3350,
Crystal Properties Matthews coefficient Solvent content 2.22 44.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.671 α = 90 b = 73.803 β = 90 c = 78.111 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 100 PIXEL DECTRIS PILATUS3 6M 2018-12-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.72932 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.324 53.703 86.3 0.087 0.026 0.999 15.7 15.7 44562
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.336 1.4 0.455 1.2
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5OQ9 1.324 53.703 44562 2261 84.302 0.171 0.1695 0.1694 0.1976 0.1972 16.881
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] 0.086 -0.005 -0.081
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.556 r_dihedral_angle_4_deg 19.845 r_dihedral_angle_3_deg 11.645 r_dihedral_angle_1_deg 7.532 r_lrange_it 5.617 r_lrange_other 5.617 r_scangle_it 4.19 r_scangle_other 4.185 r_scbond_it 2.753 r_scbond_other 2.753
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.556 r_dihedral_angle_4_deg 19.845 r_dihedral_angle_3_deg 11.645 r_dihedral_angle_1_deg 7.532 r_lrange_it 5.617 r_lrange_other 5.617 r_scangle_it 4.19 r_scangle_other 4.185 r_scbond_it 2.753 r_scbond_other 2.753 r_mcangle_it 2.535 r_mcangle_other 2.524 r_angle_refined_deg 1.844 r_mcbond_it 1.643 r_mcbond_other 1.62 r_angle_other_deg 1.507 r_symmetry_xyhbond_nbd_refined 0.419 r_symmetry_nbd_refined 0.268 r_nbd_refined 0.261 r_nbd_other 0.254 r_symmetry_nbd_other 0.202 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.163 r_chiral_restr 0.093 r_symmetry_nbtor_other 0.086 r_symmetry_xyhbond_nbd_other 0.027 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1762 Nucleic Acid Atoms Solvent Atoms 177 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction STARANISO data scaling REFMAC phasing