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A cytidine deaminase edits C-to-U in transfer RNAs in archaea
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.2 295 0.1 M Na cacodylate, 32-40% PEG 400, 0.1 M Ca acetate, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 3.07 59.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 184.465 α = 90 b = 77.06 β = 103.57 c = 109.082 γ = 90
Symmetry Space Group C 1 2 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 2008-07-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C APS 24-ID-C
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 2.4 50 55130
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 MIR THROUGHOUT 2.4 30 55116 2938 99.42 0.20496 0.2018 0.26482 0.2671 RANDOM 60.679
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] 0.06 -0.28 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.533 r_dihedral_angle_4_deg 20.987 r_dihedral_angle_3_deg 19.808 r_dihedral_angle_1_deg 5.57 r_scangle_it 5.382 r_scbond_it 3.354 r_mcangle_it 2.91 r_mcbond_it 1.789 r_angle_refined_deg 1.217 r_angle_other_deg 1.088
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.533 r_dihedral_angle_4_deg 20.987 r_dihedral_angle_3_deg 19.808 r_dihedral_angle_1_deg 5.57 r_scangle_it 5.382 r_scbond_it 3.354 r_mcangle_it 2.91 r_mcbond_it 1.789 r_angle_refined_deg 1.217 r_angle_other_deg 1.088 r_chiral_restr 0.065 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_gen_planes_other 0.005 r_bond_other_d 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8587 Nucleic Acid Atoms Solvent Atoms 189 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling