☰ Navigation Tabs
Z. MAYS CK2 KINASE ALPHA SUBUNIT IN COMPLEX WITH THE ATP-COMPETITIVE INHIBITOR 5,6-DIBROMOBENZOTRIAZOLE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4RLK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 pH 7.5 (1M Sodium HEPES; MOPS), 40% v/v PEG 500* MME; 20 % w/v PEG 20K; 0.2M Sodium formate; 0.2M Ammonium acetate; 0.2M Sodium citrate tribasic dihydrate; 0.2M Sodium potassium tartrate tetrahydrate; 0.2M Sodium oxamate
Crystal Properties Matthews coefficient Solvent content 2.19 43.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.311 α = 90 b = 59.726 β = 90 c = 105.385 γ = 90
Symmetry Space Group P 21 21 21
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 2015-08-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.9116 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.45 51.96 98 0.057 0.048 0.99 14.19 3.23 60461 22.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.54 95.9 0.55 0.84 2.81 2.78
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4RLK 1.45 51.96 57482 2923 98 0.14989 0.14888 0.16945 0.1851 RANDOM 22.744
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] -0.76 -0.9 1.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.199 r_dihedral_angle_4_deg 18.418 r_dihedral_angle_3_deg 13.206 r_long_range_B_refined 5.964 r_long_range_B_other 5.489 r_dihedral_angle_1_deg 5.425 r_scangle_other 2.589 r_mcangle_it 2.209 r_mcangle_other 2.208 r_scbond_it 1.532
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.199 r_dihedral_angle_4_deg 18.418 r_dihedral_angle_3_deg 13.206 r_long_range_B_refined 5.964 r_long_range_B_other 5.489 r_dihedral_angle_1_deg 5.425 r_scangle_other 2.589 r_mcangle_it 2.209 r_mcangle_other 2.208 r_scbond_it 1.532 r_scbond_other 1.531 r_angle_refined_deg 1.454 r_mcbond_it 1.317 r_mcbond_other 1.317 r_angle_other_deg 0.972 r_chiral_restr 0.103 r_bond_refined_d 0.012 r_gen_planes_refined 0.01 r_gen_planes_other 0.004 r_bond_other_d 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2774 Nucleic Acid Atoms Solvent Atoms 453 Heterogen Atoms 60
Software Software Software Name Purpose XDS data reduction XDS data scaling MOLREP phasing WARP model building REFMAC refinement ARP/wARP phasing