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Absolute Stereochemistry of Ulapualide A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QZ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Batch 6 293 100 mM MES, 15% methyl ether poly(ethylene glycol) 5000, 75 mM CaCl2, 1 mM sodium azide, 1 mM TCEP, pH 6.0, Batch, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.23 44.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.8 α = 90 b = 75.2 β = 100.2 c = 67.5 γ = 90
Symmetry Space Group P 1 21 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 CUSTOM-MADE 2003-04-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.964 APS 19-ID
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 1.6 65.94 99.7 0.066 36.5 4.3 52947 52947 26.2
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) 1.6 1.66 99.9 0.347 5.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1QZ6 1.6 65.94 52947 50233 2690 99.7 0.15338 0.15338 0.152 0.17903 0.1848 RANDOM 16.76
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] -0.03 -0.19 0.2 -0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.547 r_scangle_it 4.092 r_scbond_it 2.486 r_angle_other_deg 1.732 r_angle_refined_deg 1.673 r_mcangle_it 1.484 r_mcbond_it 0.83 r_symmetry_vdw_other 0.371 r_symmetry_hbond_refined 0.261 r_nbd_other 0.249
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.547 r_scangle_it 4.092 r_scbond_it 2.486 r_angle_other_deg 1.732 r_angle_refined_deg 1.673 r_mcangle_it 1.484 r_mcbond_it 0.83 r_symmetry_vdw_other 0.371 r_symmetry_hbond_refined 0.261 r_nbd_other 0.249 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.169 r_nbtor_other 0.162 r_symmetry_vdw_refined 0.142 r_chiral_restr 0.101 r_metal_ion_refined 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_gen_planes_other 0.008 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2783 Nucleic Acid Atoms Solvent Atoms 387 Heterogen Atoms 90
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling MOLREP phasing REFMAC refinement HKL-2000 data reduction