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Crystal structure of human saposin B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.8 295 POLYETHYLENE GLYCOL 3350, MAGNESIUM ACETATE,
SODIUM CACODYLATE, PH 5.8, VAPOR DIFFUSION, HANGING DROP,
TEMPERATURE 295K. THE CRYSTAL WAS TREATED WITH A MOTHER
LIQUOR SOLUTION CONTAINING 0.1% HYDROGEN PEROXIDE PRIOR
TO FREEZING.
Crystal Properties Matthews coefficient Solvent content 2.68 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.14 α = 90 b = 72.14 β = 90 c = 94.366 γ = 120
Symmetry Space Group P 31 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 CCD ADSC QUANTUM 4 2000-04-21 M MAD, SE-MET
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F2 0.9789, 0.9793 CHESS F2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.2 37 98.3 0.059 9 10.5 14644 14644 22.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.2 2.32 98.3 0.289 2.6 5.3 14644
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.2 19.74 14613 729 98.3 0.222 0.222 0.2214 0.262 0.2654 RANDOM 45.8
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] -3.05 1.75 -3.05 6.11
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 18.3 c_angle_deg 1.2 c_improper_angle_d 0.82 c_bond_d 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1819 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 46
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SnB phasing SHARP phasing DM model building CNS refinement CCP4 data scaling