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Crystal structure of a GCN5-related N-acetyltransferase from Brucella melitensis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PZJ PDB entry 3pzj
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 289 BrabA.17403.a.A1 OS01078 at 28.7 mg/mL against JCSG+ condition A3 0.2 M ammonium citrate, 20% PEG 3350 with 25% ethylene glycol as cryo-protectant, crystal tracking ID 223197a3, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.63 53.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.49 α = 90 b = 66.86 β = 107.51 c = 91.69 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 RAYONIX MX-300 2011-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 1.03322 CLSI 08ID-1
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 1.75 50 97.1 0.067 13.81 3.7 59730 58008 -3 24.153
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 1.75 1.8 82.3 0.453 2.65 3.3 4397
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 3pzj 1.75 50 58008 2918 97.18 0.1626 0.1612 0.1695 0.1895 0.1962 RANDOM 20.4328
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] 1.07 -0.13 -1.32 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.854 r_dihedral_angle_4_deg 18.257 r_dihedral_angle_3_deg 12.039 r_dihedral_angle_1_deg 5.771 r_angle_refined_deg 1.388 r_angle_other_deg 0.843 r_chiral_restr 0.081 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.854 r_dihedral_angle_4_deg 18.257 r_dihedral_angle_3_deg 12.039 r_dihedral_angle_1_deg 5.771 r_angle_refined_deg 1.388 r_angle_other_deg 0.843 r_chiral_restr 0.081 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3587 Nucleic Acid Atoms Solvent Atoms 625 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction