☰ Navigation Tabs
Streptavidin S112Y Co-TAML artificial metalloenzyme
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PK2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 0.1 M sodium acetate pH 4.0
2 M ammonium sulfate
soaking with pH change to pH 6.0
Crystal Properties Matthews coefficient Solvent content 2.32 47.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 192.51 α = 90 b = 57.615 β = 107.415 c = 57.615 γ = 90
Symmetry Space Group C 1 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 EIGER X 16M 2022-09-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 0.99988 NSLS X6A
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 2 45.964 98.6 0.095 0.113 0.061 0.998 10.7 6.4 40299
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 2 2.05 0.856 1.02 0.548 0.718 6.5
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 2 45.964 40291 1947 98.371 0.188 0.1873 0.1873 0.2083 0.2083 36.224
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] 2.561 0.936 -1.759 -1.161
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.864 r_dihedral_angle_3_deg 13.205 r_lrange_it 10.911 r_lrange_other 10.346 r_dihedral_angle_2_deg 9.206 r_scangle_it 9.129 r_scangle_other 8.435 r_dihedral_angle_1_deg 7.705 r_scbond_it 5.895 r_scbond_other 5.479
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.864 r_dihedral_angle_3_deg 13.205 r_lrange_it 10.911 r_lrange_other 10.346 r_dihedral_angle_2_deg 9.206 r_scangle_it 9.129 r_scangle_other 8.435 r_dihedral_angle_1_deg 7.705 r_scbond_it 5.895 r_scbond_other 5.479 r_mcangle_it 4.471 r_mcangle_other 4.47 r_mcbond_it 3.221 r_mcbond_other 3.22 r_angle_refined_deg 1.991 r_angle_other_deg 0.538 r_nbd_refined 0.212 r_symmetry_nbd_other 0.208 r_nbtor_refined 0.204 r_xyhbond_nbd_refined 0.152 r_symmetry_xyhbond_nbd_refined 0.152 r_nbd_other 0.125 r_symmetry_nbtor_other 0.089 r_chiral_restr 0.07 r_symmetry_nbd_refined 0.059 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3676 Nucleic Acid Atoms Solvent Atoms 126 Heterogen Atoms 182
Software Software Software Name Purpose REFMAC refinement XDS data reduction PHASER phasing XDS data scaling