☰ Navigation Tabs
Dispersin from Terribacillus saccharophilus DispTs3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YHT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 Morpheus B3, 0.09 M Halogens, 30% glycerol/PEG4000 mix, from Microseed matrix screening
Crystal Properties Matthews coefficient Solvent content 2.46 50.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.948 α = 90 b = 109.352 β = 90 c = 131.084 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 PILATUS 6M 2017-01-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976 Diamond I03
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 1.95 83.97 99.8 0.146 0.183 0.108 0.994 7.3 4.9 54127 23.7
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 1.95 2 1.401 1.758 1.047 0.341 1 4.8
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 1.95 83.97 54069 2624 99.628 0.191 0.1888 0.1889 0.224 0.2237 31.211
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] -1.896 3.178 -1.283
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.519 r_dihedral_angle_6_deg 15.994 r_dihedral_angle_3_deg 15.497 r_dihedral_angle_1_deg 10.859 r_lrange_it 9.031 r_lrange_other 9.031 r_scangle_it 7.278 r_scangle_other 7.277 r_scbond_it 5.006 r_scbond_other 5.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.519 r_dihedral_angle_6_deg 15.994 r_dihedral_angle_3_deg 15.497 r_dihedral_angle_1_deg 10.859 r_lrange_it 9.031 r_lrange_other 9.031 r_scangle_it 7.278 r_scangle_other 7.277 r_scbond_it 5.006 r_scbond_other 5.005 r_mcangle_other 4.358 r_mcangle_it 4.355 r_mcbond_it 3.321 r_mcbond_other 3.318 r_angle_refined_deg 1.914 r_angle_other_deg 0.726 r_chiral_restr_other 0.306 r_symmetry_xyhbond_nbd_refined 0.279 r_nbd_refined 0.235 r_symmetry_nbd_other 0.199 r_nbd_other 0.196 r_nbtor_refined 0.194 r_xyhbond_nbd_refined 0.167 r_symmetry_nbd_refined 0.106 r_ncsr_local_group_1 0.094 r_symmetry_nbtor_other 0.087 r_chiral_restr 0.085 r_bond_refined_d 0.012 r_gen_planes_refined 0.012 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5212 Nucleic Acid Atoms Solvent Atoms 333 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing