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Crystal structure of the cGMP-dependent protein kinase PKG from Plasmodium Vivax - Apo form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 10% PEG 5000 MME, 5% Tacsimate ph7.0, 0.1 M Hepes ph7, 15 mM spermidine, 25% glycerol
Crystal Properties Matthews coefficient Solvent content 3.95 68.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 192.471 α = 90 b = 117.773 β = 94.66 c = 67.682 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 100 CCD MARMOSAIC 300 mm CCD 2013-07-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.97945 APS 23-ID-B
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 2.4 44.78 99.9 0.101 0.064 0.991 7.7 3.4 58714
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 2.4 2.47 99.9 0.907 0.574 0.654 1.5 3.4 4536
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.4 44 55744 2967 99.86 0.2138 0.2121 0.2125 0.2463 0.2484 RANDOM 74.719
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] 0.82 0.24 -1.3 0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.91 r_dihedral_angle_4_deg 15.757 r_dihedral_angle_3_deg 12.492 r_sphericity_bonded 6.55 r_dihedral_angle_1_deg 5.045 r_mcangle_it 2.158 r_rigid_bond_restr 1.957 r_mcbond_other 1.566 r_mcbond_it 1.565 r_angle_refined_deg 1.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.91 r_dihedral_angle_4_deg 15.757 r_dihedral_angle_3_deg 12.492 r_sphericity_bonded 6.55 r_dihedral_angle_1_deg 5.045 r_mcangle_it 2.158 r_rigid_bond_restr 1.957 r_mcbond_other 1.566 r_mcbond_it 1.565 r_angle_refined_deg 1.083 r_angle_other_deg 0.843 r_chiral_restr 0.063 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6237 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction BALBES phasing