☰ Navigation Tabs
Apo-structure of humanised RadA-mutant humRadA28
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5J4L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 292 0.1M NaCacodylate pH=6.5, 5% PEG8000, 40% MPD
Crystal Properties Matthews coefficient Solvent content 2 38.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.771 α = 90 b = 72.1 β = 115.89 c = 41.927 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 PIXEL DECTRIS PILATUS 6M 2012-02-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.96862 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) CC (Half) 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 1.332 37.72 99.3 0.093 0.103 0.992 7.6 4.7 45801
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 1.332 1.337 99.1 1.086 2.1 3.2
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 5j4l 1.332 37.72 43497 2263 99.14 0.13669 0.13481 0.1279 0.17122 0.1641 RANDOM 21.216
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] -0.11 1.3 -1.59 0.29
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.218 r_dihedral_angle_2_deg 31.871 r_dihedral_angle_4_deg 16.119 r_sphericity_bonded 13.175 r_dihedral_angle_3_deg 11.988 r_dihedral_angle_1_deg 6.013 r_long_range_B_refined 4.291 r_long_range_B_other 3.602 r_scangle_other 3.504 r_scbond_it 2.9
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.218 r_dihedral_angle_2_deg 31.871 r_dihedral_angle_4_deg 16.119 r_sphericity_bonded 13.175 r_dihedral_angle_3_deg 11.988 r_dihedral_angle_1_deg 6.013 r_long_range_B_refined 4.291 r_long_range_B_other 3.602 r_scangle_other 3.504 r_scbond_it 2.9 r_scbond_other 2.899 r_mcangle_it 2.237 r_mcangle_other 2.236 r_rigid_bond_restr 2.2 r_mcbond_it 1.815 r_mcbond_other 1.813 r_angle_refined_deg 1.579 r_angle_other_deg 0.958 r_chiral_restr 0.099 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1784 Nucleic Acid Atoms Solvent Atoms 201 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing Coot model building