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The crystal structure of carboxyltransferase from Staphylococcus Aureus bound to the antimicrobial agent moiramide B.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F9I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 0.1 M MES, 1.6 M NH4SO4
Crystal Properties Matthews coefficient Solvent content 2.77 55.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 153.807 α = 90 b = 49.445 β = 91.94 c = 100.048 γ = 90
Symmetry Space Group C 1 2 1
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 315r KB mirrors 2016-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97918 APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.6 40 99.1 0.06 6.8 3.7 23238
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 2.6 2.72 98.5 0.46 3.7
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 2F9I 2.6 40 22099 1112 98.69 0.23171 0.22946 0.2326 0.27586 0.278 RANDOM 67.113
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] -1.74 1.29 3.59 -1.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.85 r_dihedral_angle_3_deg 15.422 r_dihedral_angle_4_deg 14.401 r_dihedral_angle_1_deg 5.226 r_long_range_B_refined 3.624 r_long_range_B_other 3.591 r_scangle_other 1.099 r_angle_refined_deg 1.005 r_mcangle_it 0.954 r_mcangle_other 0.954
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.85 r_dihedral_angle_3_deg 15.422 r_dihedral_angle_4_deg 14.401 r_dihedral_angle_1_deg 5.226 r_long_range_B_refined 3.624 r_long_range_B_other 3.591 r_scangle_other 1.099 r_angle_refined_deg 1.005 r_mcangle_it 0.954 r_mcangle_other 0.954 r_scbond_it 0.922 r_scbond_other 0.919 r_angle_other_deg 0.786 r_mcbond_it 0.528 r_mcbond_other 0.528 r_chiral_restr 0.055 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4264 Nucleic Acid Atoms Solvent Atoms 21 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing