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The crystal structure of the core domain of RhoE/Rnd3 - a constitutively activated small G protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CXZ 1CXZ CHAIN A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1M HEPES PH 7.5, 10% PROPAN-2-OL, 20% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.25 44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.454 α = 90 b = 59.454 β = 90 c = 233.024 γ = 90
Symmetry Space Group P 43 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 CCD ADSC CCD 2001-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 2.1 18.8 99.8 0.079 6.4 4.5 25276
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 2.1 2.2 100 0.343 2.2 4.2
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 1CXZ CHAIN A 2.1 18.8 24265 1260 99.7 0.185 0.183 0.2273 0.212 0.2481 RANDOM
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]
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.666 r_scbond_it 2.911 r_angle_other_deg 1.928 r_mcangle_it 1.793 r_mcbond_it 0.965 r_dihedral_angle_3_deg 0.906 r_xyhbond_nbd_other 0.377 r_symmetry_hbond_refined 0.275 r_nbd_refined 0.241 r_symmetry_vdw_refined 0.24
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.666 r_scbond_it 2.911 r_angle_other_deg 1.928 r_mcangle_it 1.793 r_mcbond_it 0.965 r_dihedral_angle_3_deg 0.906 r_xyhbond_nbd_other 0.377 r_symmetry_hbond_refined 0.275 r_nbd_refined 0.241 r_symmetry_vdw_refined 0.24 r_xyhbond_nbd_refined 0.224 r_nbd_other 0.212 r_symmetry_vdw_other 0.162 r_chiral_restr 0.137 r_metal_ion_refined 0.062 r_bond_refined_d 0.021 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_angle_refined_deg r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_nbtor_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2780 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing