☰ Navigation Tabs
X-ray structure of the human mitochondrial PRELID3b-TRIAP1 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XZV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293.15 Tacsimate (60% v/v) pH 7
Crystal Properties Matthews coefficient Solvent content 3.39 63.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.02 α = 90 b = 133 β = 90 c = 146.05 γ = 90
Symmetry Space Group I 2 2 2
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-F 2015-07-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.91 76.23 99.6 15.8 7.3 20182
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.91 3.014
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 4XZV 2.91 76.23 19209 972 99.58 0.21394 0.20983 0.2299 0.29635 0.2985 RANDOM 85.688
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] -0.67 8.88 -8.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.268 r_dihedral_angle_3_deg 20.704 r_dihedral_angle_4_deg 15.589 r_long_range_B_refined 13.015 r_long_range_B_other 13.007 r_mcangle_other 8.564 r_mcangle_it 8.563 r_scangle_other 8.032 r_dihedral_angle_1_deg 6.19 r_mcbond_it 5.518
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.268 r_dihedral_angle_3_deg 20.704 r_dihedral_angle_4_deg 15.589 r_long_range_B_refined 13.015 r_long_range_B_other 13.007 r_mcangle_other 8.564 r_mcangle_it 8.563 r_scangle_other 8.032 r_dihedral_angle_1_deg 6.19 r_mcbond_it 5.518 r_mcbond_other 5.503 r_scbond_it 5.04 r_scbond_other 5.039 r_angle_refined_deg 1.468 r_angle_other_deg 1.096 r_chiral_restr 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.003 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4485 Nucleic Acid Atoms Solvent Atoms 15 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing