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ANOMALOUS SIGNAL OF SOLVENT BROMINES USED FOR PHASING OF LYSOZYME
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8LYZ PDB ENTRY 8LYZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 CRYSTALLIZED IN HANGING DROPS. 15 MG/ML PROTEIN SOLUTION IN 100 MM SODIUM
ACETATE PH 4.6 AND 1 M SODIUM BROMIDE.
Crystal Properties Matthews coefficient Solvent content 2.05 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.6 α = 90 b = 78.6 β = 90 c = 37.2 γ = 90
Symmetry Space Group P 43 21 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 BENT MIRROR 1998-05-02 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X9B 0.9188, 0.9195, 0.9198, 0.9201 NSLS X9B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.7 20 99 0.035 0.035 50.2 8.5 13429 16.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.73 80 0.182 0.182 10 7
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 (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 FREE R PDB ENTRY 8LYZ 1.7 20 13309 1318 99 0.21 0.21 0.2104 0.29 0.2841 RANDOM 10 % 17.3
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] 0.644 0.644 -0.08
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 17.6 p_staggered_tor 14.9 p_scangle_it 6.86 p_planar_tor 6.6 p_scbond_it 5.71 p_mcangle_it 3.69 p_mcbond_it 3.11 p_multtor_nbd 0.299 p_chiral_restr 0.264 p_xyhbond_nbd 0.254
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 17.6 p_staggered_tor 14.9 p_scangle_it 6.86 p_planar_tor 6.6 p_scbond_it 5.71 p_mcangle_it 3.69 p_mcbond_it 3.11 p_multtor_nbd 0.299 p_chiral_restr 0.264 p_xyhbond_nbd 0.254 p_singtor_nbd 0.178 p_angle_d 0.053 p_planar_d 0.053 p_bond_d 0.032 p_plane_restr 0.021 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1010 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 7
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling CCP4 model building REFMAC refinement CCP4 phasing