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Crystal Structure of H-Ras with Thr50 replaced by Isoleucine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5P21 PDB ENTRY 5P21
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop 7.5 285 17% PEG 6000, 200 mM CaCl2, pH 7.5, hanging drop, temperature 285K
Crystal Properties Matthews coefficient Solvent content 2.74 55.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.21 α = 90 b = 89.21 β = 90 c = 134.64 γ = 120
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 MARMOSAIC 225 mm CCD 2007-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9998 SLS X10SA
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 1.36 99 99.8 0.043 25.36 44436 44357 -3 21.869
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) 1.36 1.4 99.9 0.295 4.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB ENTRY 5P21 1.36 30.86 44436 44353 2218 100 0.16 0.159 0.1808 0.178 0.1963 RANDOM 18.969
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] -0.04 -0.02 -0.04 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.98 r_dihedral_angle_4_deg 21.962 r_dihedral_angle_3_deg 12.332 r_sphericity_free 6.412 r_dihedral_angle_1_deg 5.693 r_scangle_it 3.289 r_sphericity_bonded 2.498 r_scbond_it 2.426 r_mcangle_it 1.874 r_angle_refined_deg 1.539
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.98 r_dihedral_angle_4_deg 21.962 r_dihedral_angle_3_deg 12.332 r_sphericity_free 6.412 r_dihedral_angle_1_deg 5.693 r_scangle_it 3.289 r_sphericity_bonded 2.498 r_scbond_it 2.426 r_mcangle_it 1.874 r_angle_refined_deg 1.539 r_mcbond_it 1.311 r_rigid_bond_restr 1.225 r_angle_other_deg 0.939 r_symmetry_vdw_refined 0.567 r_mcbond_other 0.478 r_symmetry_hbond_refined 0.419 r_nbd_refined 0.282 r_symmetry_vdw_other 0.247 r_nbd_other 0.215 r_xyhbond_nbd_refined 0.201 r_nbtor_refined 0.178 r_chiral_restr 0.084 r_nbtor_other 0.082 r_symmetry_metal_ion_refined 0.056 r_metal_ion_refined 0.05 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1320 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 36
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection XDS data reduction MOLREP phasing