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Crystal Structure of SilF (Ag(I) form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8BBZ 8BBZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 (0.2 M LiSO4, 0.1 M Bis Tris pH 6.5, 25% w/v PEG 3350
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.937 α = 90 b = 81.594 β = 90 c = 95.785 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS3 6M 2021-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.9795 Diamond I24
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 1.7 62.113 99.95 0.998 12.8 13.4 53238
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 1.7 1.761 0.328 0.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 8BBZ 1.7 62.113 53238 2620 99.962 0.201 0.1991 0.1992 0.2301 0.2301 31.678
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] -0.003 0.004 -0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.903 r_dihedral_angle_4_deg 18.536 r_dihedral_angle_3_deg 11.356 r_lrange_it 7.68 r_lrange_other 7.631 r_dihedral_angle_1_deg 7.296 r_scangle_it 6.203 r_scangle_other 6.2 r_scbond_it 4.145 r_scbond_other 4.092
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.903 r_dihedral_angle_4_deg 18.536 r_dihedral_angle_3_deg 11.356 r_lrange_it 7.68 r_lrange_other 7.631 r_dihedral_angle_1_deg 7.296 r_scangle_it 6.203 r_scangle_other 6.2 r_scbond_it 4.145 r_scbond_other 4.092 r_mcangle_other 3.852 r_mcangle_it 3.851 r_mcbond_it 2.777 r_mcbond_other 2.765 r_angle_other_deg 2.318 r_angle_refined_deg 1.583 r_symmetry_nbd_refined 0.271 r_nbd_other 0.26 r_symmetry_nbd_other 0.207 r_nbd_refined 0.196 r_nbtor_refined 0.153 r_xyhbond_nbd_refined 0.14 r_symmetry_xyhbond_nbd_refined 0.136 r_symmetry_xyhbond_nbd_other 0.101 r_chiral_restr 0.077 r_symmetry_nbtor_other 0.074 r_bond_other_d 0.035 r_gen_planes_other 0.012 r_bond_refined_d 0.011 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3563 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction Aimless data scaling PHASER phasing