☰ Navigation Tabs
YEATS in complex with histone H3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5VNA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9.4 290 1.36 M ammonium sulfate, 100 mM CHES pH 9.4
Crystal Properties Matthews coefficient Solvent content 2.6 52.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.79 α = 90 b = 80.305 β = 90 c = 121.663 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 110 CCD MARMOSAIC 225 mm CCD 2016-08-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.4 50 97.5 28 7 27276
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.44 99.9 3 6.8
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 5VNA 2.4 48.67 25753 1354 97.42 0.18916 0.18619 0.1917 0.24771 0.2501 RANDOM 58.66
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 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.834 r_dihedral_angle_3_deg 15.965 r_dihedral_angle_4_deg 15.853 r_long_range_B_other 10.537 r_long_range_B_refined 10.526 r_mcangle_it 7.393 r_mcangle_other 7.392 r_scangle_other 7.39 r_dihedral_angle_1_deg 7.011 r_scbond_it 5.038
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.834 r_dihedral_angle_3_deg 15.965 r_dihedral_angle_4_deg 15.853 r_long_range_B_other 10.537 r_long_range_B_refined 10.526 r_mcangle_it 7.393 r_mcangle_other 7.392 r_scangle_other 7.39 r_dihedral_angle_1_deg 7.011 r_scbond_it 5.038 r_mcbond_it 4.919 r_mcbond_other 4.916 r_scbond_other 4.905 r_angle_refined_deg 1.643 r_angle_other_deg 0.95 r_chiral_restr 0.091 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4273 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing