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L1 Ribozyme Ligase circular adduct
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 1.8M lithium sulfate, 10mM magnesium sulfate, 50mM sodium cacodylate (pH 6.0), 100mM sodium chloride, 60mM magnesium chloride, 30mM tris (pH 7.6), VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.43 64.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.29 α = 90 b = 100.018 β = 104.42 c = 71.93 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 100 CCD ADSC QUANTUM 315 2006-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.9840 SSRL BL9-1
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 2.6 100 99.5 0.044 0.056 20.2 4.1 19071 19071
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.74 99.9 0.467 0.615 2.5 4.1 2767
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.6 31.34 17100 1949 99.42 0.2065 0.20291 0.23776 0.2914 RANDOM 75.023
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] -0.64 0.22 0.5 0.25
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 1.976 r_scangle_it 1.898 r_scbond_it 1.12 r_nbtor_refined 0.285 r_nbd_refined 0.199 r_symmetry_vdw_refined 0.155 r_xyhbond_nbd_refined 0.149 r_symmetry_hbond_refined 0.144 r_chiral_restr 0.085 r_bond_refined_d 0.01
RMS Deviations Key Refinement Restraint Deviation r_angle_refined_deg 1.976 r_scangle_it 1.898 r_scbond_it 1.12 r_nbtor_refined 0.285 r_nbd_refined 0.199 r_symmetry_vdw_refined 0.155 r_xyhbond_nbd_refined 0.149 r_symmetry_hbond_refined 0.144 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg 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_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_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 3054 Solvent Atoms 26 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement Blu-Ice data collection MOSFLM data reduction CCP4 data scaling PHASER phasing