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Crystal structure of the large terminase nuclease from thermophilic phage G20c with bound Calcium
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2 M Ammonium Tartrate, 0.1 M Bis-tris pH 5.5-6.5, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 1.93 36.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.453 α = 90 b = 53.597 β = 91.8 c = 69.852 γ = 90
Symmetry Space Group P 1 21 1
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-F 2016-04-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9795 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.1 43.43 99.4 0.078 0.094 0.052 0.996 6.5 3.2 129065
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.1 1.12 99.4 0.97 0.401 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.1 43.43 122752 6288 99.3 0.2229 0.2222 0.2268 0.2348 0.2394 RANDOM 12.938
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] 0.84 -0.15 -0.21 -0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.413 r_dihedral_angle_4_deg 11.115 r_dihedral_angle_3_deg 10.733 r_dihedral_angle_1_deg 5.89 r_angle_refined_deg 1.24 r_mcangle_it 0.927 r_angle_other_deg 0.864 r_mcbond_it 0.565 r_mcbond_other 0.562 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.413 r_dihedral_angle_4_deg 11.115 r_dihedral_angle_3_deg 10.733 r_dihedral_angle_1_deg 5.89 r_angle_refined_deg 1.24 r_mcangle_it 0.927 r_angle_other_deg 0.864 r_mcbond_it 0.565 r_mcbond_other 0.562 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2910 Nucleic Acid Atoms Solvent Atoms 428 Heterogen Atoms 2
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling PHASER phasing