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The crystal structure of the truncated PAK2 containing D368N 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 pH5.51, 1.4M (NH4)2SO4, 0.025% CH2Cl2
Crystal Properties Matthews coefficient Solvent content 2.69 54.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 167.325 α = 90 b = 167.325 β = 90 c = 212.863 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 PILATUS3 6M 2018-11-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.987 SSRF BL19U1
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 2.62 50 100 0.159 0.983 14.3 10.9 34739
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 2.62 2.71 100 1.245 0.815 2 11
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.62 42.89 30996 1470 89.092 0.199 0.1983 0.2036 0.222 0.2246 55.592
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] -0.23 -0.115 -0.23 0.746
RMS Deviations Key Refinement Restraint Deviation r_lrange_other 16.331 r_lrange_it 16.319 r_dihedral_angle_6_deg 15.234 r_dihedral_angle_3_deg 14.109 r_scangle_it 11.07 r_scangle_other 10.975 r_mcangle_it 10.254 r_mcangle_other 10.254 r_scbond_it 6.879 r_scbond_other 6.788
RMS Deviations Key Refinement Restraint Deviation r_lrange_other 16.331 r_lrange_it 16.319 r_dihedral_angle_6_deg 15.234 r_dihedral_angle_3_deg 14.109 r_scangle_it 11.07 r_scangle_other 10.975 r_mcangle_it 10.254 r_mcangle_other 10.254 r_scbond_it 6.879 r_scbond_other 6.788 r_dihedral_angle_1_deg 6.726 r_mcbond_it 6.556 r_mcbond_other 6.556 r_angle_refined_deg 1.614 r_dihedral_angle_2_deg 0.905 r_angle_other_deg 0.539 r_symmetry_xyhbond_nbd_refined 0.236 r_nbd_other 0.214 r_nbd_refined 0.197 r_symmetry_nbd_other 0.193 r_nbtor_refined 0.167 r_symmetry_nbd_refined 0.153 r_xyhbond_nbd_refined 0.152 r_symmetry_xyhbond_nbd_other 0.115 r_chiral_restr 0.08 r_symmetry_nbtor_other 0.079 r_bond_refined_d 0.008 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 5292 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing