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1.16A X-ray structure of the synthetic DNA fragment with the incorporated 2'-O-[(2-Guanidinium)ethyl]-5-methyluridine residues
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 1.88 34.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.111 α = 90 b = 43.151 β = 90 c = 45.558 γ = 90
Symmetry Space Group P 21 21 21
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 MARRESEARCH MIRRORS 1999-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 5ID-B APS 5ID-B
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 1.16 19.5 97.4 0.06 5 17426
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 1.16 20 16535 891 97.4 0.134 0.132 0.1413 0.174 0.1792 RANDOM 16.67
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] 0.29 0.15 -0.44
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 11.381 r_sphericity_bonded 7.752 r_scangle_it 3.93 r_scbond_it 3.047 r_rigid_bond_restr 2.209 r_angle_refined_deg 1.982 r_angle_other_deg 1.267 r_xyhbond_nbd_refined 0.347 r_symmetry_hbond_refined 0.298 r_symmetry_vdw_refined 0.248
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 11.381 r_sphericity_bonded 7.752 r_scangle_it 3.93 r_scbond_it 3.047 r_rigid_bond_restr 2.209 r_angle_refined_deg 1.982 r_angle_other_deg 1.267 r_xyhbond_nbd_refined 0.347 r_symmetry_hbond_refined 0.298 r_symmetry_vdw_refined 0.248 r_nbd_other 0.239 r_symmetry_vdw_other 0.182 r_nbd_refined 0.179 r_chiral_restr 0.107 r_nbtor_other 0.074 r_gen_planes_refined 0.031 r_bond_refined_d 0.02 r_bond_other_d 0.009 r_dihedral_angle_1_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_mcbond_it r_mcangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 418 Solvent Atoms 156 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing