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The crystal structure of core JMJD2D complexed with FE and N-oxalylglycine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 278 Ammonium sulfate, pH6.50, VAPOR DIFFUSION, HANGING DROP, temperature 278K
Crystal Properties Matthews coefficient Solvent content 2.48 50.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.543 α = 90 b = 71.543 β = 90 c = 150.194 γ = 90
Symmetry Space Group P 43 21 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 2007-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.00 ALS 8.2.1
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 2.2 50 22344 20644
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.2 47.95 19398 1045 99.38 0.17 0.168 0.1694 0.221 0.2242 RANDOM 15.142
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] 0.79 0.79 -1.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.175 r_dihedral_angle_4_deg 25.059 r_dihedral_angle_3_deg 17.858 r_dihedral_angle_1_deg 6.763 r_scangle_it 4.061 r_scbond_it 2.789 r_angle_refined_deg 1.936 r_mcangle_it 1.607 r_mcbond_it 1.072 r_symmetry_hbond_refined 0.504
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.175 r_dihedral_angle_4_deg 25.059 r_dihedral_angle_3_deg 17.858 r_dihedral_angle_1_deg 6.763 r_scangle_it 4.061 r_scbond_it 2.789 r_angle_refined_deg 1.936 r_mcangle_it 1.607 r_mcbond_it 1.072 r_symmetry_hbond_refined 0.504 r_nbtor_refined 0.313 r_nbd_refined 0.226 r_xyhbond_nbd_refined 0.222 r_symmetry_vdw_refined 0.215 r_chiral_restr 0.128 r_bond_refined_d 0.022 r_gen_planes_refined 0.008 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2692 Nucleic Acid Atoms Solvent Atoms 365 Heterogen Atoms 45
Software Software Software Name Purpose MOLREP phasing REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling