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X-ray structure of the A-decamer GCGTATACGC with a single 2'-o-butyl thymine in place of T6, Mg-form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.3 298 MGC2, PEG400, pH 6.3, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.75 55.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.435 α = 90 b = 44.434 β = 90 c = 69.533 γ = 90
Symmetry Space Group P 41 21 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 CCD MARRESEARCH mirrors 2000-12-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID APS 17-ID
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 2.3 20 0.075 4 3237 3237
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 MOLECULAR REPLACEMENT THROUGHOUT 2.3 20 3223 3223 144 99.56 0.23788 0.23674 0.2354 0.26025 0.2508 RANDOM 52.184
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] 2.29 2.29 -4.59
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 1.977 r_angle_refined_deg 1.817 r_scbond_it 1.403 r_angle_other_deg 1.355 r_nbd_other 0.244 r_symmetry_hbond_refined 0.233 r_xyhbond_nbd_refined 0.189 r_symmetry_vdw_refined 0.136 r_nbd_refined 0.122 r_chiral_restr 0.092
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 1.977 r_angle_refined_deg 1.817 r_scbond_it 1.403 r_angle_other_deg 1.355 r_nbd_other 0.244 r_symmetry_hbond_refined 0.233 r_xyhbond_nbd_refined 0.189 r_symmetry_vdw_refined 0.136 r_nbd_refined 0.122 r_chiral_restr 0.092 r_symmetry_vdw_other 0.091 r_nbtor_other 0.09 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d 0.002 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_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_it r_mcbond_other r_mcangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 412 Solvent Atoms 31 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing