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The Crystal Structure of Infectious Cypovirus Polyhedra
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 298 The microcrystals used to determine this structure were directly purified from cells, in vivo crystallization in the cytoplasm of the cell, temperature 298K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.777 α = 90 b = 102.777 β = 90 c = 102.777 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 120 CCD MAR CCD 165 mm MD2 diffractometer 2006-08-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.99830 SLS X06SA
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 1.98 20 99 0.143 13.9 7.3 12757 12630 -3 11.7
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 1.98 2.05 100 0.497 4.3 7.2 1242
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.98 18.76 12733 12605 1257 98.99 0.099 0.099 0.093 0.0987 0.154 0.1543 RANDOM 10.483
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 36.973 r_dihedral_angle_4_deg 17.947 r_dihedral_angle_3_deg 12.479 r_dihedral_angle_1_deg 6.59 r_scangle_it 2.685 r_scbond_it 1.842 r_angle_refined_deg 1.49 r_mcangle_it 0.968 r_angle_other_deg 0.874 r_mcbond_it 0.764
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.973 r_dihedral_angle_4_deg 17.947 r_dihedral_angle_3_deg 12.479 r_dihedral_angle_1_deg 6.59 r_scangle_it 2.685 r_scbond_it 1.842 r_angle_refined_deg 1.49 r_mcangle_it 0.968 r_angle_other_deg 0.874 r_mcbond_it 0.764 r_symmetry_vdw_other 0.27 r_symmetry_hbond_refined 0.217 r_nbd_refined 0.203 r_nbd_other 0.201 r_symmetry_vdw_refined 0.201 r_xyhbond_nbd_refined 0.195 r_nbtor_refined 0.187 r_mcbond_other 0.174 r_chiral_restr 0.089 r_nbtor_other 0.085 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2009 Nucleic Acid Atoms Solvent Atoms 286 Heterogen Atoms 95
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction