☰ Navigation Tabs
Crystal Structure of the S84T mutant of AntD, an N-acyltransferase from Bacillus cereus in complex with dTDP and Coenzyme A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other IN-HOUSE MIR MODEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 25% pentaerythritol ethoxylate (3/4 EO/OH), 2% isopropanol, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.57 52.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.042 α = 90 b = 71.042 β = 90 c = 138.855 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 Bruker Platinum 135 Montel 2011-10-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54178
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 1.9 38.78 96.7 0.084 0.084 8.8 4.3 54128 52346
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 1.9 2 89.4 0.289 0.289 2.5 2 6891
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT IN-HOUSE MIR MODEL 1.9 38.78 52311 49653 2658 96.78 0.17969 0.17741 0.1784 0.22195 0.2238 RANDOM 20.671
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] 0.08 0.08 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.422 r_dihedral_angle_3_deg 16.334 r_dihedral_angle_4_deg 13.953 r_dihedral_angle_1_deg 7.501 r_scangle_it 6.063 r_scbond_it 4.204 r_mcangle_it 2.523 r_angle_refined_deg 2.436 r_mcbond_it 1.657 r_chiral_restr 0.183
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.422 r_dihedral_angle_3_deg 16.334 r_dihedral_angle_4_deg 13.953 r_dihedral_angle_1_deg 7.501 r_scangle_it 6.063 r_scbond_it 4.204 r_mcangle_it 2.523 r_angle_refined_deg 2.436 r_mcbond_it 1.657 r_chiral_restr 0.183 r_bond_refined_d 0.013 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4401 Nucleic Acid Atoms Solvent Atoms 290 Heterogen Atoms 232
Software Software Software Name Purpose PROTEUM PLUS data collection PHASER phasing REFMAC refinement SAINT data reduction SADABS data scaling