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Monomeric streptavidin with a conjugated biotinylated pyrrolidine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JNJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293.15 0.2 M ammonium sulfate,
0.1 M sodium cacodylate,
30% w/v PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.53 51.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.79 α = 75.24 b = 52.74 β = 78.24 c = 89.36 γ = 84.88
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 EIGER2 XE 16M 2017-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976220 Diamond I03
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 1.8 25.48 95.7 0.967 5.6 1.7 64049
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 1.8 1.84 0.712 1.6
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 4jnj 1.8 25.48 64049 3144 95.687 0.261 0.2585 0.262 0.3008 0.3059 34.536
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] -0.459 0.254 -0.194 -2.301 -0.65 2.038
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.077 r_dihedral_angle_3_deg 15.892 r_dihedral_angle_4_deg 15.724 r_dihedral_angle_1_deg 7.82 r_lrange_it 5.244 r_lrange_other 5.243 r_scangle_it 3.263 r_scangle_other 3.263 r_mcangle_it 3.028 r_mcangle_other 3.027
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.077 r_dihedral_angle_3_deg 15.892 r_dihedral_angle_4_deg 15.724 r_dihedral_angle_1_deg 7.82 r_lrange_it 5.244 r_lrange_other 5.243 r_scangle_it 3.263 r_scangle_other 3.263 r_mcangle_it 3.028 r_mcangle_other 3.027 r_scbond_it 2.117 r_scbond_other 2.117 r_mcbond_it 1.991 r_mcbond_other 1.991 r_angle_refined_deg 1.673 r_angle_other_deg 1.268 r_symmetry_xyhbond_nbd_refined 0.221 r_symmetry_nbd_other 0.188 r_nbd_other 0.183 r_nbd_refined 0.174 r_xyhbond_nbd_refined 0.17 r_symmetry_nbd_refined 0.166 r_nbtor_refined 0.162 r_symmetry_xyhbond_nbd_other 0.088 r_symmetry_nbtor_other 0.071 r_chiral_restr 0.068 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5196 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms 141
Software Software Software Name Purpose REFMAC refinement DIALS data reduction xia2 data scaling PHASER phasing