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Crystal Structure of 3-methyladenine DNA glycosylase I (TAG)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 294 30% PEG 200, 5% PEG 3000, 100 mM MES pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.61 52.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.455 α = 90 b = 63.681 β = 106.94 c = 62.127 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2005-08-18 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.000, 0.9793, 0.9718, 0.9795 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.5 50 93.6 0.064 23.8 7 64266 64266 20.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.5 1.55 61.1 0.247 4.8 4.6 4195
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 1.5 50 64237 60990 3247 93.55 0.16283 0.16113 0.1993 0.19555 0.2215 RANDOM 31.648
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] -1.3 -1.35 2.64 -2.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.03 r_dihedral_angle_4_deg 14.712 r_dihedral_angle_3_deg 12.556 r_sphericity_free 7.053 r_dihedral_angle_1_deg 5.133 r_scangle_it 3.987 r_sphericity_bonded 3.385 r_scbond_it 2.838 r_mcangle_it 1.85 r_rigid_bond_restr 1.638
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.03 r_dihedral_angle_4_deg 14.712 r_dihedral_angle_3_deg 12.556 r_sphericity_free 7.053 r_dihedral_angle_1_deg 5.133 r_scangle_it 3.987 r_sphericity_bonded 3.385 r_scbond_it 2.838 r_mcangle_it 1.85 r_rigid_bond_restr 1.638 r_angle_refined_deg 1.427 r_mcbond_it 1.321 r_nbtor_refined 0.311 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.197 r_symmetry_hbond_refined 0.149 r_xyhbond_nbd_refined 0.12 r_chiral_restr 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2901 Nucleic Acid Atoms Solvent Atoms 328 Heterogen Atoms 73
Software Software Software Name Purpose REFMAC refinement SERGUI data collection HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing