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Complex of Ras with cyclen
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 VAPOR DIFFUSION, HANGING DROP 7.5 285 17% PEG6000, 200mM CaCl2, 30mM TRIS/HCL, 5mM MgCl2, 2mM DTE, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 285K
Crystal Properties Matthews coefficient Solvent content 2.65 53.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88 α = 90 b = 88 β = 90 c = 134 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 mirrors 2007-09-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.27982 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.02 20 97.8 0.046 0.047 24.39 4.16 12483 23.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.02 2.15 97.9 0.118 0.135 10.85 4.11 6809
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 (All) 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 2.02 19.92 12483 12423 654 100 0.19132 0.19132 0.1889 0.189 0.23806 0.2393 RANDOM 19.046
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] 0.26 0.13 0.26 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.366 r_dihedral_angle_4_deg 19.07 r_dihedral_angle_3_deg 11.776 r_dihedral_angle_1_deg 5.461 r_angle_refined_deg 1.709 r_scangle_it 1.631 r_scbond_it 1.054 r_mcangle_it 0.915 r_mcbond_it 0.521 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.366 r_dihedral_angle_4_deg 19.07 r_dihedral_angle_3_deg 11.776 r_dihedral_angle_1_deg 5.461 r_angle_refined_deg 1.709 r_scangle_it 1.631 r_scbond_it 1.054 r_mcangle_it 0.915 r_mcbond_it 0.521 r_nbtor_refined 0.301 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.186 r_symmetry_hbond_refined 0.124 r_metal_ion_refined 0.12 r_symmetry_metal_ion_refined 0.113 r_xyhbond_nbd_refined 0.104 r_chiral_restr 0.062 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1323 Nucleic Acid Atoms Solvent Atoms 142 Heterogen Atoms 50
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling