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Putative 3-demethylubiquinone-9 3-methyltransferase, PhnB protein, from Bacillus cereus.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 294 40% PEG-300, 0.1 M phoshate citrate buffer, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.77 55.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.302 α = 90 b = 62.302 β = 90 c = 90.654 γ = 90
Symmetry Space Group P 41 21 2
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 SBC-3 2004-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9792 APS 19-BM
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 1.9 36.7 99.8 0.138 7.7 15.8 14643 14643 41.9
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) 1.9 1.93 100 0.856 3.09 17.4 715
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 SAD THROUGHOUT 1.9 36.7 14535 14535 727 99.43 0.1814 0.1814 0.1798 0.1979 0.2129 0.2345 RANDOM 37.193
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] 0.15 0.15 -0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.204 r_dihedral_angle_3_deg 13.163 r_dihedral_angle_1_deg 6.155 r_scangle_it 4.081 r_dihedral_angle_4_deg 3.823 r_scbond_it 2.519 r_mcangle_it 1.706 r_angle_refined_deg 1.55 r_mcbond_it 0.961 r_angle_other_deg 0.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.204 r_dihedral_angle_3_deg 13.163 r_dihedral_angle_1_deg 6.155 r_scangle_it 4.081 r_dihedral_angle_4_deg 3.823 r_scbond_it 2.519 r_mcangle_it 1.706 r_angle_refined_deg 1.55 r_mcbond_it 0.961 r_angle_other_deg 0.9 r_mcbond_other 0.276 r_chiral_restr 0.089 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1032 Nucleic Acid Atoms Solvent Atoms 103 Heterogen Atoms 8
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling SHELXD phasing MLPHARE phasing DM phasing SOLVE phasing RESOLVE phasing