☰ Navigation Tabs
Crystal structure of (the) VEL1 VEL polymerising domain (I664D mutant)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.25M (NH4)H2PO4
Crystal Properties Matthews coefficient Solvent content 3.34 63.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.259 α = 90 b = 79.259 β = 90 c = 59.957 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 PIXEL DECTRIS PILATUS3 6M 2020-10-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.979500 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.64 27.49 98.8 0.068 0.069 0.011 1 37 20 6333
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.64 2.77 92 1.045 1 0.183 0.842 15
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.64 27.49 5671 631 98.64 0.21527 0.21157 0.2248 0.24916 0.2238 RANDOM 89.726
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] -1.43 -0.72 -1.43 4.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.308 r_dihedral_angle_4_deg 17.466 r_dihedral_angle_3_deg 15.326 r_long_range_B_refined 5.875 r_long_range_B_other 5.873 r_dihedral_angle_1_deg 4.332 r_scangle_other 1.314 r_mcangle_other 1.256 r_mcangle_it 1.255 r_angle_refined_deg 1.012
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.308 r_dihedral_angle_4_deg 17.466 r_dihedral_angle_3_deg 15.326 r_long_range_B_refined 5.875 r_long_range_B_other 5.873 r_dihedral_angle_1_deg 4.332 r_scangle_other 1.314 r_mcangle_other 1.256 r_mcangle_it 1.255 r_angle_refined_deg 1.012 r_angle_other_deg 1.008 r_scbond_it 0.777 r_scbond_other 0.777 r_mcbond_it 0.756 r_mcbond_other 0.751 r_chiral_restr 0.053 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1140 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling CRANK2 phasing Coot model building PDB_EXTRACT data extraction