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Crystal structure of Ribonuclease I from Escherichia coli COMPLEXED WITH GUANYLYL-2(PRIME),5(PRIME)-GUANOSINE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 298 25% PEG 3350, 0.1M MES, 0.1M AMMONIUM ACETATE, 1MM MAGNESIUM CHLORIDE, 10% GLYCEROL, 4MM EDTA, VAPOR DIFFUSION, HANGING DROP, pH 6.10, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.15 42.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.2 α = 90 b = 49.87 β = 96.37 c = 54.52 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 200 IMAGE PLATE RIGAKU RAXIS IIC 1997-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 1.8 54.23 85.7 0.077 18458 18428 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.86 36.4 0.182
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 (All) 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 1.8 54.23 18428 17471 957 85.6 0.231 0.22 0.218 0.217 0.257 0.2576 RANDOM 30.54
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] 2.81 0.26 -1.19 -1.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.063 r_dihedral_angle_4_deg 16.549 r_dihedral_angle_3_deg 14.504 r_dihedral_angle_1_deg 5.575 r_scangle_it 4.408 r_scbond_it 3.263 r_mcangle_it 2.096 r_angle_refined_deg 1.932 r_mcbond_it 1.268 r_symmetry_vdw_refined 0.343
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.063 r_dihedral_angle_4_deg 16.549 r_dihedral_angle_3_deg 14.504 r_dihedral_angle_1_deg 5.575 r_scangle_it 4.408 r_scbond_it 3.263 r_mcangle_it 2.096 r_angle_refined_deg 1.932 r_mcbond_it 1.268 r_symmetry_vdw_refined 0.343 r_nbtor_refined 0.308 r_symmetry_hbond_refined 0.292 r_nbd_refined 0.227 r_chiral_restr 0.17 r_xyhbond_nbd_refined 0.157 r_bond_refined_d 0.015 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1909 Nucleic Acid Atoms Solvent Atoms 142 Heterogen Atoms 43
Software Software Software Name Purpose AMoRE phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling