☰ Navigation Tabs
Crystal structure of DNA-3-methyladenine glycosidase (10174367) from Bacillus halodurans at 2.55 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 7.1 277 0.2M NaF, 20.0% PEG-3350, No Buffer, pH 7.1, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.2 61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 141.752 α = 90 b = 141.752 β = 90 c = 85.949 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 2005-09-10 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.0163, 0.9798 ALS 8.2.2
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 2.54 46.42 93.4 0.091 15.62 6.49 31756 54.685
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 2.54 2.63 86.1 0.39 2 2
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 MAD THROUGHOUT 2.55 46.4 31729 1606 98 0.198 0.196 0.2011 0.246 0.2512 RANDOM 57.814
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] 1.61 0.81 1.61 -2.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.165 r_dihedral_angle_3_deg 16.788 r_dihedral_angle_4_deg 16.676 r_scangle_it 7.528 r_dihedral_angle_1_deg 5.808 r_scbond_it 5.484 r_mcangle_it 2.885 r_mcbond_it 1.693 r_angle_refined_deg 1.418 r_angle_other_deg 0.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.165 r_dihedral_angle_3_deg 16.788 r_dihedral_angle_4_deg 16.676 r_scangle_it 7.528 r_dihedral_angle_1_deg 5.808 r_scbond_it 5.484 r_mcangle_it 2.885 r_mcbond_it 1.693 r_angle_refined_deg 1.418 r_angle_other_deg 0.93 r_mcbond_other 0.367 r_symmetry_vdw_other 0.238 r_nbd_refined 0.236 r_symmetry_hbond_refined 0.197 r_nbtor_refined 0.194 r_nbd_other 0.181 r_xyhbond_nbd_refined 0.173 r_symmetry_vdw_refined 0.152 r_nbtor_other 0.088 r_chiral_restr 0.073 r_xyhbond_nbd_other 0.026 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4815 Nucleic Acid Atoms Solvent Atoms 40 Heterogen Atoms
Software Software Software Name Purpose MolProbity model building REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELX phasing autoSHARP phasing