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Crystal Structure of the Human Oncogenic Splice Variant Rac1b Fused with the Scaffold Protein POSH (residues 319-348)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9RFF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 293 14% 1-propanol, 10% PEG 5000 MME, 0.1 M MES pH 6.8
Crystal Properties Matthews coefficient Solvent content 2.79 55.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.341 α = 90 b = 109.618 β = 90 c = 46.641 γ = 90
Symmetry Space Group P 21 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 PIXEL DECTRIS PILATUS 6M-F Compound refractive element 2022-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.96546 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.77 48.73 93 0.115 0.12 0.033 0.997 12.1 12.9 18728
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.77 1.97 64 1.74 1.82 0.52 0.68 1.7 11.5
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 THROUGHOUT 1.774 48.73 18728 974 67.532 0.159 0.156 0.1683 0.2122 0.2222 35.207
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] 5.728 -2.024 -3.704
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 18.203 r_lrange_other 18.2 r_dihedral_angle_6_deg 15.019 r_scangle_it 13.113 r_scangle_other 13.108 r_mcangle_other 12.353 r_mcangle_it 12.348 r_dihedral_angle_3_deg 11.883 r_scbond_it 8.827 r_scbond_other 8.821
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 18.203 r_lrange_other 18.2 r_dihedral_angle_6_deg 15.019 r_scangle_it 13.113 r_scangle_other 13.108 r_mcangle_other 12.353 r_mcangle_it 12.348 r_dihedral_angle_3_deg 11.883 r_scbond_it 8.827 r_scbond_other 8.821 r_mcbond_it 8.253 r_mcbond_other 8.226 r_dihedral_angle_1_deg 6.708 r_dihedral_angle_2_deg 6.304 r_rigid_bond_restr 3.813 r_angle_refined_deg 1.472 r_angle_other_deg 0.491 r_chiral_restr_other 0.331 r_nbd_refined 0.205 r_symmetry_nbd_other 0.201 r_nbd_other 0.189 r_nbtor_refined 0.172 r_xyhbond_nbd_refined 0.157 r_symmetry_xyhbond_nbd_refined 0.084 r_symmetry_nbtor_other 0.083 r_symmetry_nbd_refined 0.08 r_chiral_restr 0.07 r_dihedral_angle_other_2_deg 0.055 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1517 Nucleic Acid Atoms Solvent Atoms 76 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction Aimless data scaling PHASER phasing