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Activated Calcium-Dependent Protein Kinase 1 from Cryptosporidium parvum (CpCDPK1) in complex with bumped kinase inhibitor RM-1-95
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IGO 3IGO, PROTEIN ONLY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 298 27% PEG 3350, 0.27 M ammonium tartrate (pH 7.0), 6% PEG 400, 5 mM TCEP, 4 mM MgCl2, 2 mM CaCl2, 2 mM inhibitor, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.38 48.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.02 α = 90 b = 55.97 β = 104.79 c = 82.21 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 CCD MARMOSAIC 325 mm CCD 2010-02-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 1.98 58.03 99.8 0.046 11.1548 3.71 36138 5 34.8
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 1.98 2.1 99.8 0.43 2.3 3.67
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 FOURIER SYNTHESIS THROUGHOUT 3IGO, PROTEIN ONLY 1.98 42.04 36121 1808 99.8 0.196 0.194 0.2001 0.229 0.2365 RANDOM 55.41
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] -0.37 0.78 -0.14 0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.227 r_dihedral_angle_4_deg 19.531 r_dihedral_angle_3_deg 14.233 r_dihedral_angle_1_deg 5.58 r_scangle_it 5.549 r_scbond_it 3.704 r_mcangle_it 3.257 r_mcbond_it 2.011 r_angle_refined_deg 1.218 r_angle_other_deg 0.856
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.227 r_dihedral_angle_4_deg 19.531 r_dihedral_angle_3_deg 14.233 r_dihedral_angle_1_deg 5.58 r_scangle_it 5.549 r_scbond_it 3.704 r_mcangle_it 3.257 r_mcbond_it 2.011 r_angle_refined_deg 1.218 r_angle_other_deg 0.856 r_mcbond_other 0.601 r_chiral_restr 0.071 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3607 Nucleic Acid Atoms Solvent Atoms 125 Heterogen Atoms 32
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing