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Crystal Structure Of of PHF20L1 Tudor1 Y24L mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3SD4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1.6M lithium sulfate, 0.1M Tris, PH 8.0
Crystal Properties Matthews coefficient Solvent content 3.09 60.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.57 α = 90 b = 52.57 β = 90 c = 38.646 γ = 90
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 315r 2019-03-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.979 SSRF BL19U1
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 1.58 37.173 99.93 0.097 37.4 13.2 13228 16.48
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 1.582 1.623 0.341 6.3
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 THROUGHOUT 3SD4 1.58 37.17 13228 1319 99.93 0.1792 0.178 0.1704 0.1909 0.1894 RANDOM 16.575
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] 0.06 0.06 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.065 r_dihedral_angle_4_deg 16.015 r_dihedral_angle_3_deg 12.179 r_dihedral_angle_1_deg 6.453 r_angle_refined_deg 1.161 r_angle_other_deg 1.113 r_chiral_restr 0.049 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.065 r_dihedral_angle_4_deg 16.015 r_dihedral_angle_3_deg 12.179 r_dihedral_angle_1_deg 6.453 r_angle_refined_deg 1.161 r_angle_other_deg 1.113 r_chiral_restr 0.049 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 596 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction HKL-2000 data reduction PHASER phasing