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Structure of the vIRF4-HAUSP TRAF domain complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F1W PDB ENTRY 2F1W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.9 5% PEG3350, 0.2 M MAGNESIUM FORMATE, PH 5.9
Crystal Properties Matthews coefficient Solvent content 2.26 45.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.462 α = 90 b = 72.462 β = 90 c = 53.84 γ = 120
Symmetry Space Group P 32 2 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 CCD ADSC QUANTUM 210 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 4A PAL/PLS 4A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.6 50 100 0.06 65.2 21.7 21908 2
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 1.6 1.66 100 0.27 11.9 21.8
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 PDB ENTRY 2F1W 1.6 30 20747 1118 99.99 0.15861 0.15777 0.1643 0.17426 0.1795 RANDOM 14.858
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] 0.5 0.25 0.5 -0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.456 r_dihedral_angle_3_deg 11.676 r_dihedral_angle_4_deg 10.77 r_dihedral_angle_1_deg 6.325 r_scangle_it 3.334 r_scbond_it 2.367 r_mcangle_it 1.912 r_sphericity_free 1.82 r_sphericity_bonded 1.466 r_mcbond_it 1.376
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.456 r_dihedral_angle_3_deg 11.676 r_dihedral_angle_4_deg 10.77 r_dihedral_angle_1_deg 6.325 r_scangle_it 3.334 r_scbond_it 2.367 r_mcangle_it 1.912 r_sphericity_free 1.82 r_sphericity_bonded 1.466 r_mcbond_it 1.376 r_rigid_bond_restr 1.3 r_angle_refined_deg 1.131 r_nbtor_refined 0.305 r_nbd_refined 0.191 r_symmetry_vdw_refined 0.158 r_symmetry_hbond_refined 0.14 r_xyhbond_nbd_refined 0.122 r_chiral_restr 0.081 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1295 Nucleic Acid Atoms Solvent Atoms 238 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOLREP phasing