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bound to ssRNA dinucleotide GC, ADP, AlF4-, and Mg2+(transition state, data set I)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 100 mM Na2HPO4/KH2PO4
200 mM NaCl
15 mM MgCl2
90 mM sarcosine
25% (w/v) PEG 1000, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.44 49.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.71 α = 90 b = 100.71 β = 90 c = 40.4 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 IMAGE PLATE MAR scanner 345 mm plate Rigaku VariMax 2010-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2.2 50 96.9 3 22553 -3 36.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.3 83.7 3
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 FOURIER SYNTHESIS THROUGHOUT 2.2 36.66 21145 1108 100 0.22938 0.22677 0.2266 0.2797 0.2768 RANDOM 26.449
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] -0.14 -0.07 -0.14 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.607 r_dihedral_angle_4_deg 16.614 r_dihedral_angle_3_deg 13.431 r_dihedral_angle_1_deg 5.718 r_scangle_it 1.989 r_scbond_it 1.203 r_angle_refined_deg 1.155 r_angle_other_deg 0.792 r_mcangle_it 0.779 r_mcbond_it 0.412
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.607 r_dihedral_angle_4_deg 16.614 r_dihedral_angle_3_deg 13.431 r_dihedral_angle_1_deg 5.718 r_scangle_it 1.989 r_scbond_it 1.203 r_angle_refined_deg 1.155 r_angle_other_deg 0.792 r_mcangle_it 0.779 r_mcbond_it 0.412 r_mcbond_other 0.083 r_chiral_restr 0.068 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3096 Nucleic Acid Atoms 40 Solvent Atoms 135 Heterogen Atoms 58
Software Software Software Name Purpose MAR345dtb data collection REFMAC refinement XDS data reduction XSCALE data scaling