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Dispersin from Terribacillus saccharophilus DispTs2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other 8QAK own structure unpublished at the time
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 MPD screen E7: 0.1 M Citric acid pH 4.0, 20% MPD
Crystal Properties Matthews coefficient Solvent content 3.02 59.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.688 α = 90 b = 89.688 β = 90 c = 97.685 γ = 120
Symmetry Space Group P 32 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 6M-F 2017-06-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
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 1.51 30.4 100 0.056 0.062 0.027 0.999 17.7 10 71635
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 1.51 1.54 1.764 1.966 0.86 0.51 10
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 THROUGHOUT 1.51 30.398 71592 3623 99.98 0.155 0.1534 0.1534 0.1784 0.1785 26.325
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] -1.493 -0.747 -1.493 4.844
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.936 r_lrange_it 16 r_lrange_other 15.999 r_dihedral_angle_3_deg 13.937 r_dihedral_angle_2_deg 12.817 r_scangle_it 12.638 r_scangle_other 12.635 r_mcangle_it 10.466 r_mcangle_other 10.464 r_scbond_it 9.471
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.936 r_lrange_it 16 r_lrange_other 15.999 r_dihedral_angle_3_deg 13.937 r_dihedral_angle_2_deg 12.817 r_scangle_it 12.638 r_scangle_other 12.635 r_mcangle_it 10.466 r_mcangle_other 10.464 r_scbond_it 9.471 r_scbond_other 9.468 r_mcbond_it 7.956 r_mcbond_other 7.947 r_dihedral_angle_1_deg 6.79 r_rigid_bond_restr 5.339 r_angle_refined_deg 1.593 r_angle_other_deg 0.562 r_nbd_refined 0.228 r_nbd_other 0.21 r_symmetry_nbd_other 0.201 r_nbtor_refined 0.188 r_xyhbond_nbd_refined 0.131 r_symmetry_xyhbond_nbd_refined 0.123 r_symmetry_nbd_refined 0.122 r_symmetry_nbtor_other 0.082 r_chiral_restr 0.081 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2621 Nucleic Acid Atoms Solvent Atoms 198 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement REFMAC refinement Aimless data scaling XDS data reduction Aimless data scaling MOLREP phasing