☰ Navigation Tabs
Arabidopsis OM64 TPR domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VYI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 0.1 M Citric acid, pH 3.5, 25 % (w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.12 42.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.388 α = 87.57 b = 61.135 β = 87.99 c = 106.563 γ = 78.26
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 PIXEL DECTRIS PILATUS 2M 2015-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.966000 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 29.91 92.7 0.068 0.097 0.068 5.8 1.7 45460
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.11 89.3 0.454 0.642 0.454 1.7
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 2VYI 2 29.91 43064 2395 92.71 0.1864 0.1821 0.1957 0.2653 0.2757 RANDOM 32.094
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] 3.64 0.69 0.01 -2.64 -0.9 -0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.161 r_dihedral_angle_4_deg 18.012 r_dihedral_angle_3_deg 17.572 r_dihedral_angle_1_deg 5.513 r_angle_refined_deg 1.484 r_angle_other_deg 0.963 r_chiral_restr 0.083 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.161 r_dihedral_angle_4_deg 18.012 r_dihedral_angle_3_deg 17.572 r_dihedral_angle_1_deg 5.513 r_angle_refined_deg 1.484 r_angle_other_deg 0.963 r_chiral_restr 0.083 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5988 Nucleic Acid Atoms Solvent Atoms 609 Heterogen Atoms
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction ADDREF data reduction ACORN phasing