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Structural and Biochemical Insight into Assembly of Molecular Motors Involved in Viral DNA Packaging
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7LW0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 277 2.5 M ammonium sulfate, 5% isopropanol
Crystal Properties Matthews coefficient Solvent content 2.62 53.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.721 α = 82.12 b = 49.507 β = 86.58 c = 74.472 γ = 67.37
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 Bruker PHOTON II 2019-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER X8 PROTEUM 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.35 21.7 99.8 0.987 2.1 2.68 21002
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.35 3.5 0.98
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 7LW0 2.35 21.69 18989 2013 99.63 0.1485 0.1467 0.1454 0.1646 0.1555 RANDOM 19.641
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] 0.04 0.04 -0.03 -0.03 0.13 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.928 r_dihedral_angle_3_deg 18.13 r_dihedral_angle_4_deg 15.468 r_dihedral_angle_1_deg 6.971 r_angle_refined_deg 1.741 r_angle_other_deg 1.308 r_chiral_restr 0.114 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.928 r_dihedral_angle_3_deg 18.13 r_dihedral_angle_4_deg 15.468 r_dihedral_angle_1_deg 6.971 r_angle_refined_deg 1.741 r_angle_other_deg 1.308 r_chiral_restr 0.114 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3480 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling PDB_EXTRACT data extraction APEX 2 data reduction PHASER phasing