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Bs164 in complex with mannocyclophellitol aziridine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6T7G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M ammonium tartrate pH 7.0, 13 % PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.53 51.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.335 α = 92.272 b = 103.959 β = 97.708 c = 170.127 γ = 106.397
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 PIXEL DECTRIS PILATUS 6M-F 2019-09-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.976246 Diamond I04-1
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 2.05 99.597 98.1 0.98 3.2 3.5 277094
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 2.05 2.09 0.655 0.9
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 6T7G 2.05 99.4 276413 13624 97.814 0.225 0.2231 0.2254 0.2583 0.2597 46.039
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] 1.451 2.825 -2.623 3.296 -0.177 -5.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.282 r_dihedral_angle_4_deg 22.399 r_dihedral_angle_3_deg 15.5 r_lrange_other 7.785 r_lrange_it 7.784 r_dihedral_angle_1_deg 7.648 r_scangle_it 6.222 r_scangle_other 6.222 r_mcangle_it 5.703 r_mcangle_other 5.703
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.282 r_dihedral_angle_4_deg 22.399 r_dihedral_angle_3_deg 15.5 r_lrange_other 7.785 r_lrange_it 7.784 r_dihedral_angle_1_deg 7.648 r_scangle_it 6.222 r_scangle_other 6.222 r_mcangle_it 5.703 r_mcangle_other 5.703 r_scbond_it 4.341 r_scbond_other 4.341 r_mcbond_other 4.217 r_mcbond_it 4.216 r_angle_refined_deg 1.437 r_angle_other_deg 1.287 r_symmetry_xyhbond_nbd_refined 0.296 r_nbd_other 0.277 r_nbd_refined 0.198 r_symmetry_nbd_refined 0.185 r_symmetry_nbd_other 0.179 r_nbtor_refined 0.171 r_xyhbond_nbd_refined 0.16 r_xyhbond_nbd_other 0.114 r_symmetry_nbtor_other 0.076 r_chiral_restr 0.067 r_ncsr_local_group_4 0.065 r_ncsr_local_group_13 0.065 r_ncsr_local_group_5 0.064 r_ncsr_local_group_15 0.064 r_ncsr_local_group_12 0.063 r_ncsr_local_group_14 0.062 r_ncsr_local_group_1 0.061 r_ncsr_local_group_8 0.061 r_ncsr_local_group_9 0.061 r_ncsr_local_group_10 0.061 r_ncsr_local_group_2 0.06 r_ncsr_local_group_3 0.06 r_ncsr_local_group_11 0.06 r_ncsr_local_group_6 0.059 r_ncsr_local_group_7 0.059 r_symmetry_xyhbond_nbd_other 0.057 r_bond_refined_d 0.008 r_gen_planes_refined 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 31275 Nucleic Acid Atoms Solvent Atoms 795 Heterogen Atoms 134
Software Software Software Name Purpose REFMAC refinement DIALS data reduction xia2 data scaling PHASER phasing