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Crystal Structure Of The Human P21-Activated Kinase 6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BVA PDB ENTRIES 2BVA, 1YHW, 1YHV, 1F3M experimental model PDB 1YHW PDB ENTRIES 2BVA, 1YHW, 1YHV, 1F3M experimental model PDB 1YHV PDB ENTRIES 2BVA, 1YHW, 1YHV, 1F3M experimental model PDB 1F3M PDB ENTRIES 2BVA, 1YHW, 1YHV, 1F3M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 1.60M MGSO4 0.1M MES PH 6.5 SITTING DROPS, 150NL AND 50NL PROTEIN AND RESERVOIR MIX.
Crystal Properties Matthews coefficient Solvent content 2.57 51.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.781 α = 90 b = 66.674 β = 90 c = 96.999 γ = 90
Symmetry Space Group P 21 21 21
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 DYNAMICALLY BENDABLE MIRROR 2005-09-03 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 55 98.8 0.08 11.1 3.5 177870 -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 1.69 93.6 0.57 2.1 2.5
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 ENTRIES 2BVA, 1YHW, 1YHV, 1F3M 1.6 54.96 49551 1675 98.6 0.198 0.197 0.1961 0.222 0.2191 RANDOM 21.82
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] 0.48 -0.28 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.029 r_dihedral_angle_4_deg 20.083 r_dihedral_angle_3_deg 13.074 r_dihedral_angle_1_deg 6.096 r_scangle_it 3.905 r_scbond_it 2.531 r_angle_refined_deg 1.61 r_mcangle_it 1.601 r_mcbond_it 1.221 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.029 r_dihedral_angle_4_deg 20.083 r_dihedral_angle_3_deg 13.074 r_dihedral_angle_1_deg 6.096 r_scangle_it 3.905 r_scbond_it 2.531 r_angle_refined_deg 1.61 r_mcangle_it 1.601 r_mcbond_it 1.221 r_nbtor_refined 0.31 r_nbtor_other 0.272 r_nbd_refined 0.212 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.159 r_symmetry_hbond_refined 0.131 r_chiral_restr 0.119 r_angle_other_deg 0.046 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_nbd_other 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_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 2288 Nucleic Acid Atoms Solvent Atoms 350 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing