☰ Navigation Tabs
Crystal structure of the catalytic subunit of protein kinase CK2 (C-terminal deletion mutant 1-335) in complex with two sulfate ions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PJK PDB entry 1PJK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 PEGmme 5000, ammonium sulfate, MES, adenylyl imidodiphosphate, magnesium chloride, peptide RRRADDSDDDDD, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.97 37.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.67 α = 90 b = 45.371 β = 111.22 c = 63.442 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 IMAGE PLATE MAR scanner 345 mm plate Osmic multilayer mirror 2003-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.605 19.71 99.6 0.142 10.5 4.7 40626 40464 21.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.605 1.7 99.2 46.6 3.2 4.2 5999
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB entry 1PJK 1.605 19.71 40666 38632 2034 100 0.1868 0.1868 0.18396 0.19 0.24146 0.2431 RANDOM 10.401
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] 0.2 -0.33 0.19 -0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.153 r_dihedral_angle_4_deg 18.45 r_dihedral_angle_3_deg 13.497 r_scangle_it 6.516 r_dihedral_angle_1_deg 5.562 r_mcangle_it 4.798 r_scbond_it 4.712 r_mcbond_it 4.195 r_angle_refined_deg 1.223 r_mcbond_other 1.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.153 r_dihedral_angle_4_deg 18.45 r_dihedral_angle_3_deg 13.497 r_scangle_it 6.516 r_dihedral_angle_1_deg 5.562 r_mcangle_it 4.798 r_scbond_it 4.712 r_mcbond_it 4.195 r_angle_refined_deg 1.223 r_mcbond_other 1.103 r_angle_other_deg 0.873 r_symmetry_vdw_other 0.25 r_nbd_refined 0.205 r_nbd_other 0.187 r_nbtor_refined 0.181 r_symmetry_vdw_refined 0.181 r_symmetry_hbond_refined 0.175 r_xyhbond_nbd_refined 0.139 r_nbtor_other 0.081 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2771 Nucleic Acid Atoms Solvent Atoms 310 Heterogen Atoms 41
Software Software Software Name Purpose XDS data scaling REFMAC refinement XDS data reduction