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Wild-type core streptavidin-biotin complex at atomic resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MK5 PDB entry 1MK5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 298 30% saturated ammonium sulfate, 0.1 M sodium acetate, 0.2 M sodium chloride, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.15 42.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.426 α = 90 b = 94.062 β = 90 c = 104.608 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH 2003-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.9794 SSRL BL11-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 0.88 70.01 83.4 0.049 49.14 150014 150014
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.88 0.9 9.4 836
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION isomorphous to previous structure THROUGHOUT PDB entry 1MK5 0.95 50 137368 137368 6914 95.62 0.1161 0.1161 0.1153 0.1244 0.1313 0.1378 RANDOM 16.25
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] -0.19 0.94 -0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.331 r_sphericity_free 23.052 r_dihedral_angle_4_deg 17.658 r_dihedral_angle_3_deg 11.356 r_scangle_it 11.033 r_sphericity_bonded 9.848 r_scbond_it 9.165 r_dihedral_angle_1_deg 7.422 r_mcangle_it 7.226 r_mcbond_it 6.241
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.331 r_sphericity_free 23.052 r_dihedral_angle_4_deg 17.658 r_dihedral_angle_3_deg 11.356 r_scangle_it 11.033 r_sphericity_bonded 9.848 r_scbond_it 9.165 r_dihedral_angle_1_deg 7.422 r_mcangle_it 7.226 r_mcbond_it 6.241 r_mcbond_other 5.352 r_rigid_bond_restr 5.066 r_angle_other_deg 2.803 r_angle_refined_deg 1.761 r_chiral_restr 0.126 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_gen_planes_other 0.005 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1814 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 50
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection Fc phasing