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Crystal structure of Cypovirus Polyhedra mutant with deletion of Ser193 and Ala194
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2OH6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 IN CELL 300 In vivo crystallization
Crystal Properties Matthews coefficient Solvent content 1.62 23.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.06 α = 90 b = 103.06 β = 90 c = 103.06 γ = 90
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 2015-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1 SPring-8 BL41XU
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 1.5 50 100 7.99 23.3 29249
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 1.5 1.59
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 2OH6 1.5 42.07 26306 2911 99.99 0.16044 0.15597 0.1559 0.20227 0.2022 RANDOM 11.295
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.805 r_dihedral_angle_4_deg 20.527 r_dihedral_angle_3_deg 12.326 r_dihedral_angle_1_deg 6.9 r_long_range_B_refined 4.075 r_angle_refined_deg 2.022 r_scbond_it 1.956 r_mcangle_it 1.181 r_mcbond_it 0.81 r_chiral_restr 0.142
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.805 r_dihedral_angle_4_deg 20.527 r_dihedral_angle_3_deg 12.326 r_dihedral_angle_1_deg 6.9 r_long_range_B_refined 4.075 r_angle_refined_deg 2.022 r_scbond_it 1.956 r_mcangle_it 1.181 r_mcbond_it 0.81 r_chiral_restr 0.142 r_bond_refined_d 0.02 r_gen_planes_refined 0.013 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other 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 1991 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 75
Software Software Software Name Purpose REFMAC refinement