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Crystal Structure of the Erythromycin Dehydratase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other A model generated by PHENIX from the anomalous bromine dataset
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.4 295 2.15 M ammonium sulfate, 100 mM sodium cacodylate pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 3.19 61.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.997 α = 90 b = 66.997 β = 90 c = 186.238 γ = 90
Symmetry Space Group P 43 21 2
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 mirrors 2008-04-12 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159, 0.9200 ALS 8.3.1
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 1.85 50 100 0.076 0.076 42.5 14 37089 37089 31
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) 1.85 1.92 100 0.659 0.659 2.5 14.2 3513
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT A model generated by PHENIX from the anomalous bromine dataset 1.85 45.55 37089 33313 3687 99.86 0.2003 0.19722 0.22692 RANDOM 32.98
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] 0.35 0.35 -0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.7 r_dihedral_angle_4_deg 20.371 r_dihedral_angle_3_deg 15.839 r_dihedral_angle_1_deg 6.012 r_scangle_it 5.635 r_scbond_it 3.397 r_mcangle_it 2.549 r_angle_refined_deg 1.794 r_mcbond_it 1.409 r_chiral_restr 0.148
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.7 r_dihedral_angle_4_deg 20.371 r_dihedral_angle_3_deg 15.839 r_dihedral_angle_1_deg 6.012 r_scangle_it 5.635 r_scbond_it 3.397 r_mcangle_it 2.549 r_angle_refined_deg 1.794 r_mcbond_it 1.409 r_chiral_restr 0.148 r_bond_refined_d 0.019 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1989 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms 6
Software Software Software Name Purpose ADSC data collection PHENIX model building REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing