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The Crystal Structure of RSK1 from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4NIF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M Hepes pH7.0, 15% PEG 20000
Crystal Properties Matthews coefficient Solvent content 2.34 47.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.676 α = 90 b = 143.632 β = 95.83 c = 60.228 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER X 9M 2022-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.953719 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 2.65 47.88 99.9 0.14 9 6.9 19469
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 2.65 2.78 0.888
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 2.65 46.049 19442 948 99.846 0.242 0.239 0.2626 0.309 0.3396 70
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] -9.519 -0.933 -5.541 14.938
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 10.292 r_dihedral_angle_6_deg 9.437 r_lrange_it 5.545 r_lrange_other 5.54 r_dihedral_angle_1_deg 4.664 r_mcangle_it 3.122 r_mcangle_other 3.121 r_dihedral_angle_2_deg 2.659 r_scangle_it 2.45 r_scangle_other 2.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 10.292 r_dihedral_angle_6_deg 9.437 r_lrange_it 5.545 r_lrange_other 5.54 r_dihedral_angle_1_deg 4.664 r_mcangle_it 3.122 r_mcangle_other 3.121 r_dihedral_angle_2_deg 2.659 r_scangle_it 2.45 r_scangle_other 2.45 r_mcbond_it 1.76 r_mcbond_other 1.759 r_scbond_it 1.331 r_scbond_other 1.331 r_angle_refined_deg 0.637 r_angle_other_deg 0.231 r_symmetry_nbd_other 0.172 r_nbd_refined 0.171 r_nbtor_refined 0.164 r_symmetry_xyhbond_nbd_refined 0.115 r_xyhbond_nbd_refined 0.114 r_nbd_other 0.106 r_symmetry_nbtor_other 0.072 r_symmetry_nbd_refined 0.046 r_chiral_restr 0.032 r_chiral_restr_other 0.03 r_bond_refined_d 0.002 r_bond_other_d 0.002 r_gen_planes_refined 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4559 Nucleic Acid Atoms Solvent Atoms 72 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing