☰ Navigation Tabs
Native structure of LSD2/AOF1/KDM1b in spacegroup of I222 at 2.9A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HKO
Crystallization Crystal Properties Matthews coefficient Solvent content 3.5 64.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.322 α = 90 b = 170.933 β = 90 c = 202.566 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 130 CCD MAR CCD 165 mm 2011-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BSRF BEAMLINE 1W2B BSRF 1W2B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.9 50 99.8 0.113 0.093 15.7 5.2 55698 55566 3 3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 2.95 99.5 0.443 0.346 2.9 4.6 2759
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2HKO 2.9 50 3 3 55698 52723 2818 99.58 0.18813 0.18813 0.18628 0.1888 0.22233 0.1877 RANDOM 45.586
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] -0.7 -2.96 3.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.807 r_dihedral_angle_4_deg 19.854 r_dihedral_angle_3_deg 18.748 r_dihedral_angle_1_deg 6.043 r_angle_refined_deg 1.281 r_chiral_restr 0.088 r_bond_refined_d 0.008 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11480 Nucleic Acid Atoms Solvent Atoms 464 Heterogen Atoms 118
Software Software Software Name Purpose MAR345dtb data collection PHASES phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling