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Crystal Structure of a C-terminal deletion mutant of human protein kinase CK2 catalytic subunit
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JWH CHAIN A of PDB ENTRY 1JWH
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 2.05 39.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.044 α = 90 b = 46.502 β = 112.02 c = 64.262 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 283 IMAGE PLATE MARRESEARCH Osmic mirrors 2002-12-06 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 2.5 17.3 98.5 0.118 8.4 2.3 11207 11207 41.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.59 99.9
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 CHAIN A of PDB ENTRY 1JWH 2.5 17.3 10099 10099 1100 98.51 0.18792 0.18792 0.18027 0.1852 0.25737 0.2562 RANDOM 12.728
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] -1.1 1.05 -1.52 3.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.064 r_scangle_it 1.605 r_angle_refined_deg 1.119 r_scbond_it 0.938 r_angle_other_deg 0.769 r_mcangle_it 0.769 r_mcbond_it 0.411 r_symmetry_vdw_other 0.224 r_nbd_other 0.206 r_nbd_refined 0.182
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.064 r_scangle_it 1.605 r_angle_refined_deg 1.119 r_scbond_it 0.938 r_angle_other_deg 0.769 r_mcangle_it 0.769 r_mcbond_it 0.411 r_symmetry_vdw_other 0.224 r_nbd_other 0.206 r_nbd_refined 0.182 r_symmetry_hbond_refined 0.182 r_xyhbond_nbd_refined 0.166 r_symmetry_vdw_refined 0.13 r_nbtor_other 0.082 r_chiral_restr 0.068 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_xyhbond_nbd_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2793 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing