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Calcium-Dependent Protein Kinase from Eimeria tenella
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3Q5I PDB entry 3q5i
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 protein buffer: 25 mM HEPES pH 7.0, 5% glycerol, 500 mM NaCl, 2 mM DTT, 175 uM EtCDPK1; crystallization buffer: 100 mM BIS/TRIS pH 6.5, 23% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.55 51.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.669 α = 90 b = 109.556 β = 92.17 c = 77.729 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 PIXEL PSI PILATUS 6M 2014-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97945 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim 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 3.19 38.84 98.8 0.497 0.203 0.976 5.6 6.9 18399 78
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.19 3.41 97.9 2.994 1.245 0.254 1 6.7 3280
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 PDB entry 3q5i 3.19 38.84 17298 910 97.71 0.2311 0.2284 0.2301 0.2804 0.283 RANDOM 73.509
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] 0.64 1.77 3.89 -4.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.66 r_dihedral_angle_3_deg 21.121 r_dihedral_angle_4_deg 16.835 r_dihedral_angle_1_deg 5.772 r_mcangle_it 4.37 r_mcbond_it 2.538 r_mcbond_other 2.537 r_angle_refined_deg 1.445 r_angle_other_deg 0.993 r_chiral_restr 0.078
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.66 r_dihedral_angle_3_deg 21.121 r_dihedral_angle_4_deg 16.835 r_dihedral_angle_1_deg 5.772 r_mcangle_it 4.37 r_mcbond_it 2.538 r_mcbond_other 2.537 r_angle_refined_deg 1.445 r_angle_other_deg 0.993 r_chiral_restr 0.078 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7518 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 8
Software Software Software Name Purpose XDS data reduction Aimless data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction