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GTPase IN COMPLEX WITH GDP.MGF3-
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5M6X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 Protein stock of RhoA-Y34F3Y 0.7 mM, RhoGAP-R85A 0.7 mM in a buffer of BisTris-HCl, pH 6.0, NaCl 150 mM, MgCl2 5 mM, NaF 10 mM, DTT 1 mM mixed 1:1.2 ratio with the
precipitant solution of 0.1 M BisTris-HCl, pH 5.8, PEG3350 26% (w/v).
Crystal Properties Matthews coefficient Solvent content 1.93 36.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.765 α = 90 b = 66.489 β = 95.27 c = 76.958 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER2 XE 16M 2020-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 1.91 55.64 100 0.135 0.16 0.085 0.996 10.4 6.7 57691
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.91 1.95 100 0.649 1
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 5M6X 1.91 55.64 54747 2918 99.97 0.2462 0.2436 0.2545 0.2945 0.3054 RANDOM 28.051
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] 2.8 0.89 -2.71 -0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.533 r_dihedral_angle_4_deg 18.928 r_dihedral_angle_3_deg 15.55 r_dihedral_angle_1_deg 6.207 r_angle_refined_deg 1.351 r_angle_other_deg 1.161 r_chiral_restr 0.064 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.533 r_dihedral_angle_4_deg 18.928 r_dihedral_angle_3_deg 15.55 r_dihedral_angle_1_deg 6.207 r_angle_refined_deg 1.351 r_angle_other_deg 1.161 r_chiral_restr 0.064 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5847 Nucleic Acid Atoms Solvent Atoms 339 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling Coot model building MOLREP phasing