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Inhibited dimeric pseudorabies virus protease pUL26N at 2 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4V07 PDB ENTRY 4V07
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 PROTEIN SOLUTION WAS INCUBATED WITH 5 MM DFP FOR 1 HOUR, THEN CRYSTALLIZED FROM 0.1 M TRIS/HCL PH 8, 0.2 M MGCL2, 20% PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.07 40.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.062 α = 90 b = 76.226 β = 90 c = 111.055 γ = 90
Symmetry Space Group P 21 21 21
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 MIRRORS 2014-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 2.03 62.8 99.9 0.11 13.08 6.5 29319 -3 35
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 2.03 2.14 99.4 0.78 2.2 6.3
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 4V07 2.03 62.85 27886 1433 99.87 0.17346 0.17028 0.1798 0.23432 0.2394 RANDOM 35.46
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] 1.72 -0.71 -1.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.658 r_dihedral_angle_4_deg 16.034 r_dihedral_angle_3_deg 14.861 r_dihedral_angle_1_deg 5.903 r_mcangle_it 2.809 r_scbond_it 2.582 r_mcbond_it 1.847 r_mcbond_other 1.846 r_angle_refined_deg 1.763 r_angle_other_deg 0.879
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.658 r_dihedral_angle_4_deg 16.034 r_dihedral_angle_3_deg 14.861 r_dihedral_angle_1_deg 5.903 r_mcangle_it 2.809 r_scbond_it 2.582 r_mcbond_it 1.847 r_mcbond_other 1.846 r_angle_refined_deg 1.763 r_angle_other_deg 0.879 r_chiral_restr 0.102 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3306 Nucleic Acid Atoms Solvent Atoms 263 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing