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Putative Phage Recombinase UvsX
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7Z3M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 2.7 mg/mL protein solution (in 20 mM HEPES pH 7.5, 300 mM NaCl) combined with 0.12 M Monosaccharides, 0.1 M Buffer System 3 (pH 8.5), 30 % v/v Precipitant Mix 2 (MORPHEUS screen, Molecular Dimensions Inc.).
Crystal Properties Matthews coefficient Solvent content 3.24 62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.751 α = 90 b = 116.751 β = 90 c = 60.909 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 273 PIXEL DECTRIS EIGER2 XE 16M 2020-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.970902 Diamond I03
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 2.596 101.11 99.7 0.059 0.061 0.016 1 23.6 15 14778
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.71 97.6 1.045 1.081 0.275 0.902 2.7 15
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.596 101.109 14757 727 99.696 0.26 0.2577 0.2695 0.3064 0.3164 95.564
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] -1.831 -0.916 -1.831 5.941
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.423 r_lrange_it 14.793 r_lrange_other 14.791 r_dihedral_angle_6_deg 14.707 r_scangle_it 12.968 r_scangle_other 12.962 r_mcangle_it 12.431 r_mcangle_other 12.43 r_scbond_it 10.612 r_scbond_other 10.605
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.423 r_lrange_it 14.793 r_lrange_other 14.791 r_dihedral_angle_6_deg 14.707 r_scangle_it 12.968 r_scangle_other 12.962 r_mcangle_it 12.431 r_mcangle_other 12.43 r_scbond_it 10.612 r_scbond_other 10.605 r_mcbond_it 10.208 r_mcbond_other 10.149 r_dihedral_angle_1_deg 8.568 r_dihedral_angle_2_deg 5.277 r_angle_refined_deg 1.766 r_angle_other_deg 0.669 r_nbd_refined 0.263 r_symmetry_nbd_refined 0.231 r_symmetry_nbd_other 0.209 r_nbtor_refined 0.191 r_xyhbond_nbd_refined 0.169 r_nbd_other 0.129 r_symmetry_nbtor_other 0.107 r_chiral_restr 0.083 r_symmetry_xyhbond_nbd_other 0.078 r_symmetry_xyhbond_nbd_refined 0.05 r_gen_planes_refined 0.007 r_bond_refined_d 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1845 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing