☰ Navigation Tabs
CRYSTAL STRUCTURE ANALYSIS OF A FLUORESCENT FORM OF H-RAS P21 IN COMPLEX WITH GDP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4Q21 PDB ENTRY 4Q21
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.6 291 PROTEIN SOLUTION: 17.22 MG/ML PROTEIN, 64 MM TRIS PH 7.6, 20 MM MAGNESIUM CHLORIDE, 10 MM DTT, 0,1 MM SODIUM AZIDE; RESERVOIR SOLUTION: 64 MM TRIS PH 7.6, 20 MM MAGNESIUM CHLORIDE, 10 MM DTT, 0,1 MM SODIUM AZIDE, 35% PEG 400 MIXTURE OF EQUAL VOLUMES OF PROTEIN AND RESERVOIR SOLUTION, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K
Crystal Properties Matthews coefficient Solvent content 2.1 39.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49 α = 90 b = 53.9 β = 90 c = 116.2 γ = 90
Symmetry Space Group C 2 2 21
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 MARRESEARCH 2004-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 0.99 50 97 0.05 14.96 4.7 82821
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 0.99 1 96.7 0.6 2.33 4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 4Q21 1 50 76394 4021 97 0.145 0.144 0.163 0.3063 RANDOM 8.87
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] 0.53 -0.17 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.18 r_dihedral_angle_4_deg 18.923 r_dihedral_angle_3_deg 13.825 r_dihedral_angle_1_deg 7.142 r_scangle_it 2.424 r_scbond_it 1.734 r_angle_refined_deg 1.719 r_mcangle_it 1.042 r_mcbond_it 0.968 r_angle_other_deg 0.802
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.18 r_dihedral_angle_4_deg 18.923 r_dihedral_angle_3_deg 13.825 r_dihedral_angle_1_deg 7.142 r_scangle_it 2.424 r_scbond_it 1.734 r_angle_refined_deg 1.719 r_mcangle_it 1.042 r_mcbond_it 0.968 r_angle_other_deg 0.802 r_symmetry_vdw_other 0.347 r_symmetry_vdw_refined 0.301 r_nbd_refined 0.241 r_xyhbond_nbd_refined 0.214 r_nbd_other 0.196 r_nbtor_refined 0.188 r_symmetry_hbond_refined 0.188 r_nbtor_other 0.091 r_chiral_restr 0.085 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined 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 1317 Nucleic Acid Atoms Solvent Atoms 263 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing