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Structure of chloramphenicol bound to the 50S ribosomal subunit
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JJ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.8 291 PEG 6000, KCl, MgCl2, NH4Cl, Na Acetate, pH 5.8,
VAPOR DIFFUSION, SITTING DROP at 291K
Crystal Properties Matthews coefficient Solvent content 3.13 60.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 211.72 α = 90 b = 299.75 β = 90 c = 573.43 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 CCD ADSC QUANTUM 315 2002-01-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.0000 NSLS X25
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 2.92 50 99.8 0.246 0.246 8.88 7 393891 393074 -3 38.5
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) 2.92 2.97 97.1 0.965 0.965 1.5 3.5 19931
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1JJ2 3 50 360866 347962 3391 96.5 0.209 0.209 0.176 0.1743 0.209 same test set as 1JJ2 46
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] -1.23 -4.45 5.68
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 15.6 c_scangle_it 2.18 c_mcangle_it 1.95 c_improper_angle_d 1.41 c_scbond_it 1.39 c_angle_deg 1.2 c_mcbond_it 1.15 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 28801 Nucleic Acid Atoms 61617 Solvent Atoms 7867 Heterogen Atoms 251
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling CNS refinement HKL-2000 data reduction CNS phasing