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The Crystal Structure of human MYST1 from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GIV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2M LiCl, 0.1M Hepes pH7, 20% PEG6,000
Crystal Properties Matthews coefficient Solvent content 1.5 18.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.399 α = 90 b = 58.322 β = 90 c = 121.12 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 16M 2020-05-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.97918 SSRF BL17U1
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 2.2 50 96.9 0.076 20.8 7.1 16888
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 2.2 2.24 0.282
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2giv 2.2 30.476 16839 804 96.865 0.22 0.2178 0.2234 0.2632 0.2656 44.592
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] -3.214 3.873 -0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.459 r_dihedral_angle_4_deg 16.651 r_dihedral_angle_3_deg 13.888 r_dihedral_angle_1_deg 6.631 r_lrange_it 3.967 r_lrange_other 3.957 r_scangle_it 2.458 r_scangle_other 2.457 r_mcangle_it 2.379 r_mcangle_other 2.378
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.459 r_dihedral_angle_4_deg 16.651 r_dihedral_angle_3_deg 13.888 r_dihedral_angle_1_deg 6.631 r_lrange_it 3.967 r_lrange_other 3.957 r_scangle_it 2.458 r_scangle_other 2.457 r_mcangle_it 2.379 r_mcangle_other 2.378 r_mcbond_other 1.441 r_mcbond_it 1.44 r_scbond_it 1.438 r_scbond_other 1.438 r_angle_refined_deg 1.16 r_angle_other_deg 1.061 r_symmetry_xyhbond_nbd_refined 0.226 r_nbd_refined 0.178 r_symmetry_nbd_other 0.164 r_nbtor_refined 0.162 r_nbd_other 0.134 r_xyhbond_nbd_other 0.118 r_xyhbond_nbd_refined 0.11 r_symmetry_nbtor_other 0.071 r_symmetry_nbd_refined 0.07 r_chiral_restr 0.044 r_metal_ion_refined 0.022 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2163 Nucleic Acid Atoms Solvent Atoms 62 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing