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Human Casein Kinase 1 isoform delta (kinase domain) in complex with Epiblastin A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5IH4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 0.1 M Li2SO4, 0.7 - 0.8 M Na-K tartrate, 0.1 M CHES
Crystal Properties Matthews coefficient Solvent content 2.71 54.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.07 α = 90 b = 65.07 β = 90 c = 151.48 γ = 120
Symmetry Space Group P 31 2 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 PILATUS 6M 2015-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.92019 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 2.25 45.21 97.5 0.186 0.192 0.999 13.19 19 17788 -3 45.644
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.31 64.8 1.297 1.361 0.3 1.59 9.7
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 (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 5IH4 2.25 45.21 16897 890 97.45 0.241 0.24 0.2439 0.26 0.26 RANDOM 73.678
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] 4.12 2.06 4.12 -13.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.104 r_dihedral_angle_3_deg 16.162 r_dihedral_angle_4_deg 15.424 r_dihedral_angle_1_deg 6.436 r_mcangle_it 3.844 r_mcbond_it 2.355 r_mcbond_other 2.341 r_angle_refined_deg 1.836 r_angle_other_deg 1.036 r_chiral_restr 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.104 r_dihedral_angle_3_deg 16.162 r_dihedral_angle_4_deg 15.424 r_dihedral_angle_1_deg 6.436 r_mcangle_it 3.844 r_mcbond_it 2.355 r_mcbond_other 2.341 r_angle_refined_deg 1.836 r_angle_other_deg 1.036 r_chiral_restr 0.108 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2350 Nucleic Acid Atoms Solvent Atoms 37 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing PDB_EXTRACT data extraction