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The Crystal Structure of the RON from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PLS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 20% PEG 2000
Crystal Properties Matthews coefficient Solvent content 3.3 62.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.193 α = 90 b = 98.193 β = 90 c = 46.873 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 100 PIXEL DECTRIS EIGER X 9M 2024-03-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.952998 CLSI 08ID-1
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 2.05 49.1 100 0.067 20.2 13.8 28370
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 2.05 2.11 0.769
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 2.05 49.1 28348 1457 99.972 0.18 0.1774 0.1921 0.2305 0.2413 54.292
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] -4.085 -4.085 8.171
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.033 r_dihedral_angle_3_deg 12.4 r_lrange_it 8.989 r_lrange_other 8.953 r_scangle_it 6.909 r_scangle_other 6.907 r_dihedral_angle_1_deg 6.35 r_dihedral_angle_2_deg 6.019 r_mcangle_it 5.146 r_mcangle_other 5.145
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.033 r_dihedral_angle_3_deg 12.4 r_lrange_it 8.989 r_lrange_other 8.953 r_scangle_it 6.909 r_scangle_other 6.907 r_dihedral_angle_1_deg 6.35 r_dihedral_angle_2_deg 6.019 r_mcangle_it 5.146 r_mcangle_other 5.145 r_scbond_it 4.465 r_scbond_other 4.465 r_mcbond_it 3.525 r_mcbond_other 3.516 r_angle_refined_deg 1.323 r_angle_other_deg 0.477 r_symmetry_xyhbond_nbd_refined 0.268 r_symmetry_nbd_refined 0.229 r_nbd_refined 0.215 r_symmetry_nbd_other 0.193 r_nbd_other 0.191 r_nbtor_refined 0.18 r_xyhbond_nbd_refined 0.164 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.067 r_chiral_restr_other 0.042 r_dihedral_angle_other_2_deg 0.012 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2411 Nucleic Acid Atoms Solvent Atoms 192 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing