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Crystal structure of PF14_0431, kinase domain.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Z57 PDB ENTRY 1z57
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 293 1.85 M NH4SO4
0.2 M NaAcet
0.1 M Na Caodylate pH 5.6
5 mM AMPPNP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.52 65.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.081 α = 90 b = 140.081 β = 90 c = 52.418 γ = 120
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 225 mm CCD 2010-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 .97949 CLSI 08ID-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 2.5 40 99.3 0.114 9.6 5.3 20560 20417 45.2
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) 2.5 2.59 94.6 0.449 2.19 3.3 1904
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1z57 2.5 25 20556 20400 1043 99.24 0.225 0.225 0.223 0.2217 0.267 0.2664 RANDOM 32.812
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] 0.56 0.28 0.56 -0.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.456 r_dihedral_angle_3_deg 16.341 r_dihedral_angle_4_deg 15.837 r_dihedral_angle_1_deg 4.817 r_angle_refined_deg 1.008 r_scangle_it 0.904 r_angle_other_deg 0.758 r_mcangle_it 0.523 r_scbond_it 0.516 r_mcbond_it 0.277
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.456 r_dihedral_angle_3_deg 16.341 r_dihedral_angle_4_deg 15.837 r_dihedral_angle_1_deg 4.817 r_angle_refined_deg 1.008 r_scangle_it 0.904 r_angle_other_deg 0.758 r_mcangle_it 0.523 r_scbond_it 0.516 r_mcbond_it 0.277 r_chiral_restr 0.053 r_mcbond_other 0.025 r_bond_refined_d 0.005 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 2776 Nucleic Acid Atoms Solvent Atoms 43 Heterogen Atoms 40
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MxDC data collection