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The crystal structure of the truncated PAK2 containing K278R mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F3M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 0.1M DL-malic acid pH5.50, 1.3M (NH4)2SO4,3% methanol
Crystal Properties Matthews coefficient Solvent content 2.71 54.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 166.935 α = 90 b = 166.935 β = 90 c = 208.988 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 PIXEL DECTRIS EIGER X 16M 2018-10-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.979 SSRF BL17U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.89 50 99.8 0.102 0.997 17.2 8.6 24956
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.89 3 99.9 1.356 0.789 2 8.7
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.89 49.137 24956 1251 98.636 0.197 0.1948 0.2327 0.2564 102.698
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] -3.705 -1.852 -3.705 12.018
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 25.686 r_lrange_other 25.686 r_scangle_it 21.486 r_scangle_other 21.481 r_mcangle_it 19.865 r_mcangle_other 19.863 r_dihedral_angle_6_deg 17.252 r_scbond_it 15.404 r_scbond_other 15.389 r_dihedral_angle_3_deg 15.337
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 25.686 r_lrange_other 25.686 r_scangle_it 21.486 r_scangle_other 21.481 r_mcangle_it 19.865 r_mcangle_other 19.863 r_dihedral_angle_6_deg 17.252 r_scbond_it 15.404 r_scbond_other 15.389 r_dihedral_angle_3_deg 15.337 r_mcbond_it 14.506 r_mcbond_other 14.497 r_dihedral_angle_2_deg 7.03 r_dihedral_angle_1_deg 6.686 r_angle_refined_deg 1.69 r_angle_other_deg 0.526 r_symmetry_xyhbond_nbd_refined 0.391 r_nbd_other 0.26 r_symmetry_nbd_refined 0.224 r_nbd_refined 0.204 r_symmetry_nbd_other 0.186 r_nbtor_refined 0.169 r_xyhbond_nbd_refined 0.086 r_chiral_restr 0.081 r_symmetry_nbtor_other 0.077 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5402 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing