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Crystal structure of BacB, an enzyme involved in Bacilysin synthesis, in triclinic form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H7Y PDB ENTRY 3H7Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.8 288 0.1M Tris, 10% PEG 8000, 45% MPD, 0.2M NaCl, pH 6.8, Micro batch, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.32 47.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.252 α = 89.05 b = 47.198 β = 77.27 c = 62.906 γ = 82.28
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2007-05-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 2.03 30.67 91.4 0.067 8.5 2.2 30450 2 2
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 2.03 2.14 73.8 0.243 2.8 2.1 3593
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 PDB ENTRY 3H7Y 2.04 30.34 2 2 30450 28910 1537 93.26 0.20851 0.20568 0.2095 0.26192 0.2628 RANDOM 15.575
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 0.19 0.01 -0.07 -0.24 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.902 r_dihedral_angle_4_deg 16.799 r_dihedral_angle_3_deg 14.812 r_dihedral_angle_1_deg 6.091 r_scangle_it 1.748 r_scbond_it 1.114 r_angle_refined_deg 0.96 r_mcangle_it 0.663 r_mcbond_it 0.342 r_chiral_restr 0.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.902 r_dihedral_angle_4_deg 16.799 r_dihedral_angle_3_deg 14.812 r_dihedral_angle_1_deg 6.091 r_scangle_it 1.748 r_scbond_it 1.114 r_angle_refined_deg 0.96 r_mcangle_it 0.663 r_mcbond_it 0.342 r_chiral_restr 0.065 r_bond_refined_d 0.005 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3608 Nucleic Acid Atoms Solvent Atoms 177 Heterogen Atoms 29
Software Software Software Name Purpose MAR345dtb data collection PHASES phasing REFMAC refinement MOSFLM data reduction SCALA data scaling