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Complex of CK2 with a CDC7 inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other IN-HOUSE CK2 APO STRUCTURE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 20% PEG4K, 200 MM NAOAC, 100 MM TRIS, PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.32 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 142.061 α = 90 b = 60.549 β = 102.92 c = 44.747 γ = 90
Symmetry Space Group C 1 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 155 CCD ADSC QUANTUM 315r 2007-02-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 SSRL BL9-1
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 1.7 36.71 97.9 0.03 31.58 3.6 40017
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 1.7 1.8 91.8 0.13 7.9 3.1
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 IN-HOUSE CK2 APO STRUCTURE 1.7 36.71 38012 2000 97.99 0.16636 0.16444 0.1633 0.20184 0.2008 RANDOM 19.738
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.442 r_dihedral_angle_4_deg 17.271 r_dihedral_angle_3_deg 13.686 r_dihedral_angle_1_deg 6.054 r_scangle_it 5.84 r_scbond_it 4.275 r_mcangle_it 2.435 r_angle_refined_deg 2.373 r_mcbond_it 1.821 r_symmetry_vdw_refined 0.403
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.442 r_dihedral_angle_4_deg 17.271 r_dihedral_angle_3_deg 13.686 r_dihedral_angle_1_deg 6.054 r_scangle_it 5.84 r_scbond_it 4.275 r_mcangle_it 2.435 r_angle_refined_deg 2.373 r_mcbond_it 1.821 r_symmetry_vdw_refined 0.403 r_symmetry_hbond_refined 0.375 r_nbtor_refined 0.322 r_chiral_restr 0.295 r_nbd_refined 0.229 r_xyhbond_nbd_refined 0.178 r_bond_refined_d 0.032 r_gen_planes_refined 0.015 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2733 Nucleic Acid Atoms Solvent Atoms 356 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing