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Loop deletion and proline insertion mutant (deleting six residues and inserted five proline residues)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2G8C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 292 2.6 M Ammonium sulfate, 0.1 M Sodium acetate
Crystal Properties Matthews coefficient Solvent content 3.66 66.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.381 α = 90 b = 79.381 β = 90 c = 105.985 γ = 120
Symmetry Space Group P 31 2 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 2M-F 2018-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 1.0000 Photon Factory AR-NE3A
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 2.4 20 99.9 0.117 28.4 9.8 28975
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 2.4 2.44 97.6 0.516 1.89 6
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 2G8C 2.4 20 14666 794 99.74 0.22291 0.22009 0.227 0.27558 0.2763 RANDOM 63.977
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] 2.04 1.02 2.04 -6.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.814 r_dihedral_angle_4_deg 16.06 r_dihedral_angle_3_deg 15.367 r_long_range_B_other 11.397 r_long_range_B_refined 11.393 r_scangle_other 9.443 r_mcangle_other 6.766 r_mcangle_it 6.764 r_dihedral_angle_1_deg 6.539 r_scbond_it 6.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.814 r_dihedral_angle_4_deg 16.06 r_dihedral_angle_3_deg 15.367 r_long_range_B_other 11.397 r_long_range_B_refined 11.393 r_scangle_other 9.443 r_mcangle_other 6.766 r_mcangle_it 6.764 r_dihedral_angle_1_deg 6.539 r_scbond_it 6.309 r_scbond_other 6.308 r_mcbond_it 4.839 r_mcbond_other 4.833 r_angle_refined_deg 1.526 r_angle_other_deg 0.943 r_chiral_restr 0.077 r_bond_refined_d 0.013 r_bond_other_d 0.006 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1845 Nucleic Acid Atoms Solvent Atoms 30 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling Coot model building MOLREP phasing