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PanDDA analysis group deposition -- PHIP in complex with Z1424453050
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7AV9 7av9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 277 20% PEG 8000, 0.04M potassium phosphate
Crystal Properties Matthews coefficient Solvent content 1.75 29.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.811 α = 90 b = 27.139 β = 100.04 c = 56.307 γ = 90
Symmetry Space Group C 1 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 PIXEL DECTRIS PILATUS 6M 2022-09-24 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92124 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.35 55.45 97.9 0.121 0.133 0.055 0.987 24.7 5.9 26228
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.38 77.9 2.909 3.409 1.723 0.054 3.6 1035
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 FOURIER SYNTHESIS THROUGHOUT 7av9 1.36 55.44 24689 1316 96.8 0.1827 0.1814 0.2238 0.2078 0.2502 RANDOM 20.332
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 0.26 0.85 -0.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.778 r_dihedral_angle_3_deg 13.03 r_dihedral_angle_4_deg 12.254 r_dihedral_angle_1_deg 5.564 r_mcangle_it 2.656 r_angle_refined_deg 1.6 r_mcbond_other 1.458 r_mcbond_it 1.427 r_angle_other_deg 1.41 r_chiral_restr 0.085
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.778 r_dihedral_angle_3_deg 13.03 r_dihedral_angle_4_deg 12.254 r_dihedral_angle_1_deg 5.564 r_mcangle_it 2.656 r_angle_refined_deg 1.6 r_mcbond_other 1.458 r_mcbond_it 1.427 r_angle_other_deg 1.41 r_chiral_restr 0.085 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1025 Nucleic Acid Atoms Solvent Atoms 190 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing