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Structural basis of LSD1-CoREST selectivity in histone H3 recognition
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IW5 PDB ENTRY 2IW5
Crystallization Crystal Properties Matthews coefficient Solvent content 7 80
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.057 α = 90 b = 180.496 β = 90 c = 233.387 γ = 90
Symmetry Space Group I 2 2 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 CCD MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 3.1 50 96 0.11 11.4 4.2 44088
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 3.1 3.27 98.1 0.51 1.9 4.1
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 PDB ENTRY 2IW5 3.1 76.03 43224 860 95.2 0.224 0.223 0.2132 0.239 0.231 RANDOM 84.85
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] 6.79 -4.24 -2.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.413 r_dihedral_angle_3_deg 21.988 r_dihedral_angle_4_deg 19.234 r_dihedral_angle_1_deg 6.933 r_scangle_it 2.998 r_scbond_it 1.71 r_angle_refined_deg 1.67 r_mcangle_it 1.503 r_mcbond_it 0.831 r_nbtor_refined 0.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.413 r_dihedral_angle_3_deg 21.988 r_dihedral_angle_4_deg 19.234 r_dihedral_angle_1_deg 6.933 r_scangle_it 2.998 r_scbond_it 1.71 r_angle_refined_deg 1.67 r_mcangle_it 1.503 r_mcbond_it 0.831 r_nbtor_refined 0.328 r_symmetry_hbond_refined 0.309 r_nbd_refined 0.263 r_symmetry_vdw_refined 0.257 r_xyhbond_nbd_refined 0.172 r_chiral_restr 0.107 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6407 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing