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The crystal structure of the catalytic domain of pseudouridine synthase RluC from Escherichia coli
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 ammonium sulfate, HEPES, sodium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.2 44.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.725 α = 90 b = 96.725 β = 90 c = 86.884 γ = 120
Symmetry Space Group P 32 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 93 CCD ADSC QUANTUM 210 2003-10-12 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 0.97876, 0.97919, 0.98140 Photon Factory AR-NW12A
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 20 98 0.062 13.7 35502
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 83.5
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2 20 35502 1583 100 0.21254 0.20917 0.27551 RANDOM 35.263
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] -1.11 -0.56 -1.11 1.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.668 r_scangle_it 5.699 r_scbond_it 3.796 r_mcangle_it 2.151 r_angle_refined_deg 2.08 r_mcbond_it 1.242 r_nbd_refined 0.227 r_symmetry_vdw_refined 0.206 r_chiral_restr 0.182 r_xyhbond_nbd_refined 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.668 r_scangle_it 5.699 r_scbond_it 3.796 r_mcangle_it 2.151 r_angle_refined_deg 2.08 r_mcbond_it 1.242 r_nbd_refined 0.227 r_symmetry_vdw_refined 0.206 r_chiral_restr 0.182 r_xyhbond_nbd_refined 0.17 r_symmetry_hbond_refined 0.147 r_bond_refined_d 0.022 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3614 Nucleic Acid Atoms Solvent Atoms 171 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing