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The Crystal Structure of PKCi from Biortus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TW2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M Na2tartrate, 0.1M Hepes pH7.0, 20% SOKALAN PA25 CL
Crystal Properties Matthews coefficient Solvent content 2.5 50.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.76 α = 90 b = 75.047 β = 90 c = 80.266 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 2021-08-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 1.1806 CLSI 08ID-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 2.05 45.76 100 0.149 9.9 6.4 17997
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.05 2.11 0.942
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.05 40.165 17948 1014 99.939 0.173 0.1705 0.1818 0.2172 0.2225 28.127
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] -2.26 3.639 -1.378
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.664 r_dihedral_angle_3_deg 13.92 r_dihedral_angle_1_deg 6.523 r_lrange_it 5.878 r_lrange_other 5.778 r_dihedral_angle_2_deg 5.295 r_scangle_it 4.647 r_scangle_other 4.645 r_scbond_it 3.25 r_scbond_other 3.249
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.664 r_dihedral_angle_3_deg 13.92 r_dihedral_angle_1_deg 6.523 r_lrange_it 5.878 r_lrange_other 5.778 r_dihedral_angle_2_deg 5.295 r_scangle_it 4.647 r_scangle_other 4.645 r_scbond_it 3.25 r_scbond_other 3.249 r_mcangle_it 2.952 r_mcangle_other 2.951 r_mcbond_other 2.122 r_mcbond_it 2.121 r_angle_refined_deg 1.385 r_angle_other_deg 0.453 r_nbd_refined 0.194 r_symmetry_nbd_other 0.193 r_xyhbond_nbd_refined 0.189 r_nbtor_refined 0.168 r_symmetry_xyhbond_nbd_refined 0.167 r_nbd_other 0.166 r_symmetry_nbd_refined 0.133 r_ncsr_local_group_1 0.117 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.068 r_symmetry_xyhbond_nbd_other 0.011 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1779 Nucleic Acid Atoms Solvent Atoms 207 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing