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Deacetoxycephalosporin C synthase complexed with 2-oxoglutarate and ampicillin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RXF PDB ENTRY 1RXF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 1.75M AMMONIUM SULPHATE, 5MM 2-OXOGLUTARATE,0.1M HEPESPH7.5, pH 7.50
Crystal Properties Matthews coefficient Solvent content 2.26 45.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.7 α = 90 b = 106.7 β = 90 c = 71.6 γ = 120
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 MARRESEARCH 2002-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 MAX II I711
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 1.5 31.4 94 0.064 5.5 45847
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 1.5 1.55 100 0.295
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 PDB ENTRY 1RXF 1.5 31.5 40046 2132 100 0.191 0.189 0.1985 0.236 0.2455 RANDOM 22.3
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] -0.66 -0.33 -0.66 0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.154 r_scangle_it 5.169 r_scbond_it 3.28 r_mcangle_it 2.472 r_angle_refined_deg 2.375 r_angle_other_deg 1.943 r_mcbond_it 1.464 r_symmetry_vdw_other 0.294 r_nbd_other 0.268 r_nbd_refined 0.232
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.154 r_scangle_it 5.169 r_scbond_it 3.28 r_mcangle_it 2.472 r_angle_refined_deg 2.375 r_angle_other_deg 1.943 r_mcbond_it 1.464 r_symmetry_vdw_other 0.294 r_nbd_other 0.268 r_nbd_refined 0.232 r_symmetry_hbond_refined 0.222 r_xyhbond_nbd_refined 0.181 r_chiral_restr 0.145 r_symmetry_vdw_refined 0.125 r_nbtor_other 0.102 r_bond_refined_d 0.026 r_bond_other_d 0.023 r_gen_planes_other 0.01 r_gen_planes_refined 0.008 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2233 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling