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Y54F mutant of core streptavidin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MM9 PDB ENTRY 1MM9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.2 293 2.5 M sodium chloride, 0.1 M sodium-potassium phosphate (30% ethylene glycol cryoprotectant), pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.65 53.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.273 α = 90 b = 57.273 β = 90 c = 171.715 γ = 90
Symmetry Space Group I 41 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 PIXEL PSI PILATUS 6M 2011-01-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 1.0 SSRL BL12-2
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 1.15 36.628 99.1 0.057 21.8 14.7 35684 35679
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.15 1.21 93.6 0.967 2.3 9.6 6957
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1MM9 1.3 36.628 33868 33868 1811 99.97 0.1366 0.1366 0.1353 0.1397 0.16 0.1596 RANDOM 17.4686
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] 0.3 0.3 -0.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.349 r_dihedral_angle_4_deg 13.099 r_dihedral_angle_3_deg 10.838 r_sphericity_free 10.679 r_dihedral_angle_1_deg 7.547 r_scangle_it 6.05 r_sphericity_bonded 5.305 r_scbond_it 4.565 r_mcangle_it 4.293 r_mcbond_it 3.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.349 r_dihedral_angle_4_deg 13.099 r_dihedral_angle_3_deg 10.838 r_sphericity_free 10.679 r_dihedral_angle_1_deg 7.547 r_scangle_it 6.05 r_sphericity_bonded 5.305 r_scbond_it 4.565 r_mcangle_it 4.293 r_mcbond_it 3.11 r_mcbond_other 2.469 r_rigid_bond_restr 2.217 r_angle_refined_deg 1.826 r_angle_other_deg 1.027 r_chiral_restr 0.126 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 897 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms 5
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection XDS data reduction XDS data scaling BALBES phasing