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CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 430D THE RELATED RAT SARCIN/RICIN STRUCTURE (430D)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 3.0 - 3.2 M (NH4)2SO4, (50 MM KMOPS, 10 MM MGCL2, 10MM MNCL2), 2.5 MG/ML RNA, pH 7.00, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 1.97 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.481 α = 90 b = 29.481 β = 90 c = 76.353 γ = 90
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 BENT CYLINDRICAL SI-MIRROR 1998-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-D APS 14-BM-D
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 1.11 20 97.9 0.042 0.042 35.4 4.7 25407 -3
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) 1.11 1.12 2.3 0.487 0.487 2.2 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R THE RELATED RAT SARCIN/RICIN STRUCTURE (430D) 1.11 20 23932 1267 97.9 0.156 0.152 0.202 0.1891 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 8 732
RMS Deviations Key Refinement Restraint Deviation s_similar_adp_cmpnt 0.027 s_angle_d 0.024 s_anti_bump_dis_restr 0.011 s_bond_d 0.007 s_from_restr_planes 0.006 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist s_zero_chiral_vol s_non_zero_chiral_vol s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 682 Solvent Atoms 155 Heterogen Atoms
Software Software Software Name Purpose X-PLOR model building SHELXL-97 refinement DENZO data reduction SCALEPACK data scaling X-PLOR phasing