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Crystal structure of Cypovirus Polyhedra mutant with deletion of 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 1.6 23.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.86 α = 90 b = 102.86 β = 90 c = 102.86 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 PILATUS3 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 1.3 50 100 11.63 35.6 44467
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 1.3 1.38
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 1.3 41.99 40059 4402 99.99 0.14368 0.14101 0.1409 0.16864 0.1686 RANDOM 8.023
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 38.491 r_dihedral_angle_4_deg 20.515 r_dihedral_angle_3_deg 11.645 r_dihedral_angle_1_deg 6.677 r_long_range_B_refined 3.161 r_angle_refined_deg 2.331 r_scbond_it 1.687 r_mcangle_it 0.923 r_mcbond_it 0.64 r_chiral_restr 0.175
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.491 r_dihedral_angle_4_deg 20.515 r_dihedral_angle_3_deg 11.645 r_dihedral_angle_1_deg 6.677 r_long_range_B_refined 3.161 r_angle_refined_deg 2.331 r_scbond_it 1.687 r_mcangle_it 0.923 r_mcbond_it 0.64 r_chiral_restr 0.175 r_bond_refined_d 0.024 r_gen_planes_refined 0.015 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 2002 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement