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Crystal structure of human Dimethyladenosine transferase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 300 20% PEG 8000, 0.2 M Ammonium Sulfate, 8% glycerol, pH 7.5, VAPOR DIFFUSION, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.6 51.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.629 α = 90 b = 185.243 β = 91.3 c = 45.072 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 CCD ADSC QUANTUM 4 Si(111) 2005-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F2 0.9797 CHESS F2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.9 50 0.069 0.069 11.2 5.9 41616 41616
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 SAD THROUGHOUT 1.9 50 40716 40716 855 81.9 0.16515 0.16375 0.1639 0.23517 0.2344 RANDOM 21.755
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] -1.32 0.36 -0.02 1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.345 r_dihedral_angle_4_deg 19.355 r_dihedral_angle_3_deg 14.196 r_dihedral_angle_1_deg 6.434 r_scangle_it 3.976 r_scbond_it 2.518 r_angle_refined_deg 1.466 r_mcangle_it 1.437 r_mcbond_it 0.868 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.345 r_dihedral_angle_4_deg 19.355 r_dihedral_angle_3_deg 14.196 r_dihedral_angle_1_deg 6.434 r_scangle_it 3.976 r_scbond_it 2.518 r_angle_refined_deg 1.466 r_mcangle_it 1.437 r_mcbond_it 0.868 r_nbtor_refined 0.31 r_nbd_refined 0.214 r_symmetry_vdw_refined 0.187 r_xyhbond_nbd_refined 0.165 r_symmetry_hbond_refined 0.163 r_chiral_restr 0.092 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 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 4418 Nucleic Acid Atoms Solvent Atoms 809 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement ADSC data collection SCALEPACK data scaling SOLVE phasing