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Crystal structure of human ABH2 bound to dsDNA containing 1meA through cross-linking away from active site
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 61.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.915 α = 90 b = 77.915 β = 90 c = 226.04 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 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 2.35 50 95.6 0.052 30 14.5 17062 17062
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 2.35 2.39 100 0.675 2.2 13.3 860
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 2.35 20 16153 874 96.05 0.22518 0.22337 0.2177 0.25893 0.2506 RANDOM 50.67
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] -1.76 -0.88 -1.76 2.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.429 r_dihedral_angle_3_deg 12.703 r_dihedral_angle_4_deg 12.192 r_dihedral_angle_1_deg 5.603 r_scangle_it 1.184 r_angle_refined_deg 1.116 r_scbond_it 0.688 r_mcangle_it 0.44 r_nbtor_refined 0.293 r_mcbond_it 0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.429 r_dihedral_angle_3_deg 12.703 r_dihedral_angle_4_deg 12.192 r_dihedral_angle_1_deg 5.603 r_scangle_it 1.184 r_angle_refined_deg 1.116 r_scbond_it 0.688 r_mcangle_it 0.44 r_nbtor_refined 0.293 r_mcbond_it 0.25 r_nbd_refined 0.165 r_symmetry_vdw_refined 0.138 r_xyhbond_nbd_refined 0.134 r_symmetry_hbond_refined 0.108 r_chiral_restr 0.063 r_bond_refined_d 0.006 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 124 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASES phasing