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X-ray structure of human ABH2 bound to dsDNA with Mn(II) and 2KG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 8% PEG 8000, 0.1M sodium chloride, 0.05M magnesium chloride, 0.1M cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.19 61.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.91 α = 90 b = 77.91 β = 90 c = 226.558 γ = 120
Symmetry Space Group P 65 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 2007-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9717 APS 19-BM
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 2.59 50 98.9 0.049 22.3 6.2 13373 13373
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 2.59 2.63 100 0.677 2.1 5.9 649
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 2.59 20 12394 654 97.42 0.2504 0.24848 0.2428 0.28673 0.2762 RANDOM 46.994
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] -1.67 -0.83 -1.67 2.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.165 r_dihedral_angle_3_deg 15.343 r_dihedral_angle_4_deg 14.424 r_dihedral_angle_1_deg 5.71 r_scangle_it 1.354 r_angle_refined_deg 1.279 r_scbond_it 0.777 r_mcangle_it 0.48 r_nbtor_refined 0.305 r_mcbond_it 0.265
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.165 r_dihedral_angle_3_deg 15.343 r_dihedral_angle_4_deg 14.424 r_dihedral_angle_1_deg 5.71 r_scangle_it 1.354 r_angle_refined_deg 1.279 r_scbond_it 0.777 r_mcangle_it 0.48 r_nbtor_refined 0.305 r_mcbond_it 0.265 r_nbd_refined 0.195 r_symmetry_vdw_refined 0.195 r_xyhbond_nbd_refined 0.166 r_symmetry_hbond_refined 0.129 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 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 1617 Nucleic Acid Atoms 526 Solvent Atoms 37 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASES phasing