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Crystal Structure of human RhoGAP mutated in its arginine finger (R85A) in complex with RhoA.GDP.MgF3- human
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1W30
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 293 100 mM Bis Tris
pH 5.5-6.5
20-25% (w/v) PEG3350
Crystal Properties Matthews coefficient Solvent content 2.08 40.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.47 α = 90 b = 66.69 β = 95.41 c = 76.89 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 CCD RAYONIX MX-225 2012-03-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.918 BESSY 14.2
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 2.4 40.29 84.3 0.179 5.3 3 23276
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 2.4 2.49 0.661
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 1W30 2.4 76.55 23276 1260 84.07 0.22666 0.22425 0.2268 0.27197 0.2745 RANDOM 24.35
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] 1.91 1.6 -2.06 -0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.022 r_dihedral_angle_3_deg 11.878 r_dihedral_angle_4_deg 11.792 r_dihedral_angle_1_deg 5.027 r_long_range_B_refined 2.106 r_long_range_B_other 2.058 r_angle_refined_deg 1.135 r_mcangle_it 1.108 r_mcangle_other 1.108 r_angle_other_deg 0.879
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.022 r_dihedral_angle_3_deg 11.878 r_dihedral_angle_4_deg 11.792 r_dihedral_angle_1_deg 5.027 r_long_range_B_refined 2.106 r_long_range_B_other 2.058 r_angle_refined_deg 1.135 r_mcangle_it 1.108 r_mcangle_other 1.108 r_angle_other_deg 0.879 r_scangle_other 0.713 r_mcbond_it 0.594 r_mcbond_other 0.594 r_scbond_it 0.362 r_scbond_other 0.362 r_chiral_restr 0.06 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5838 Nucleic Acid Atoms Solvent Atoms 183 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing