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X-ray structure of the A-decamer GCGTATACGC with a single 2'-O-butyl thymine in place of T6, Sr-form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.3 298 SrCl2, PEG400, pH 6.3, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.66 53.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.566 α = 90 b = 43.566 β = 90 c = 69.944 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 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) 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 2.5 20 2295 2295
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 2.55 20 2295 2295 107 98.2 0.21893 0.21761 0.227 0.2435 0.2555 RANDOM 63.63
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] 3.58 3.58 -7.17
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 1.675 r_scangle_it 1.636 r_angle_other_deg 1.243 r_scbond_it 1.103 r_nbd_other 0.246 r_symmetry_vdw_other 0.2 r_nbd_refined 0.131 r_symmetry_vdw_refined 0.13 r_xyhbond_nbd_refined 0.129 r_chiral_restr 0.085
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 1.675 r_scangle_it 1.636 r_angle_other_deg 1.243 r_scbond_it 1.103 r_nbd_other 0.246 r_symmetry_vdw_other 0.2 r_nbd_refined 0.131 r_symmetry_vdw_refined 0.13 r_xyhbond_nbd_refined 0.129 r_chiral_restr 0.085 r_nbtor_other 0.082 r_symmetry_hbond_refined 0.038 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 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 406 Solvent Atoms Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing