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CRYSTAL STRUCTURE OF THE HUMAN P21-ACTIVATED KINASE 4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CDZ PDB ENTRY 2CDZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 150 UL SITTING DROPS, 4DEG, 0.2M K3(CIT), 0.1M BIS-TRIS PROPANE PH 6.5, 20% PEG3350, 10% ETHYLENE GLYCOL
Crystal Properties Matthews coefficient Solvent content 2.67 53.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.514 α = 90 b = 63.514 β = 90 c = 178.478 γ = 90
Symmetry Space Group P 41 21 2
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 MARRESEARCH MIRRORS 2006-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 1.6 43.55 99.9 0.09 13.34 7.33 49277 3
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 1.6 1.7 99.5 0.4 3.62 4.2
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 2CDZ 1.6 43.56 46301 2460 99 0.174 0.172 0.1809 0.215 0.2261 RANDOM 19.95
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] 0.28 0.28 -0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.84 r_dihedral_angle_4_deg 19.997 r_dihedral_angle_3_deg 11.338 r_scangle_it 7.346 r_scbond_it 5.795 r_dihedral_angle_1_deg 5.219 r_mcangle_it 5.218 r_mcbond_it 4.416 r_angle_refined_deg 1.147 r_angle_other_deg 0.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.84 r_dihedral_angle_4_deg 19.997 r_dihedral_angle_3_deg 11.338 r_scangle_it 7.346 r_scbond_it 5.795 r_dihedral_angle_1_deg 5.219 r_mcangle_it 5.218 r_mcbond_it 4.416 r_angle_refined_deg 1.147 r_angle_other_deg 0.895 r_symmetry_vdw_other 0.287 r_nbd_refined 0.199 r_nbd_other 0.19 r_nbtor_refined 0.165 r_symmetry_hbond_refined 0.143 r_xyhbond_nbd_refined 0.117 r_symmetry_vdw_refined 0.098 r_nbtor_other 0.082 r_chiral_restr 0.069 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2255 Nucleic Acid Atoms Solvent Atoms 205 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PHASER phasing