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DIHYDROOROTASE FROM BACILLUS ANTHRACIS WITH SUBSTRATE BOUND
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3MPG PDB entry 3MPG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 289 BIS-tris, PEG3350
Crystal Properties Matthews coefficient Solvent content 2.26 45.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.183 α = 90 b = 81.676 β = 100.29 c = 104.529 γ = 90
Symmetry Space Group P 1 21 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 MARMOSAIC 300 mm CCD 2014-08-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D 0.979800 APS 21-ID-D
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 2.33 19.72 89.5 0.137 8.05 3.44 32369
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.33 2.47
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 3MPG 2.45 19.72 1.38 28978 1521 99.33 0.20862 0.20566 0.2116 0.26464 0.269 RANDOM 41.969
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] -0.05 -0.11 0.12 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.515 r_dihedral_angle_4_deg 13.586 r_dihedral_angle_3_deg 12.81 r_dihedral_angle_1_deg 5.459 r_long_range_B_refined 3.895 r_long_range_B_other 3.729 r_mcangle_it 1.839 r_mcangle_other 1.839 r_scangle_other 1.597 r_mcbond_it 1.047
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.515 r_dihedral_angle_4_deg 13.586 r_dihedral_angle_3_deg 12.81 r_dihedral_angle_1_deg 5.459 r_long_range_B_refined 3.895 r_long_range_B_other 3.729 r_mcangle_it 1.839 r_mcangle_other 1.839 r_scangle_other 1.597 r_mcbond_it 1.047 r_mcbond_other 1.047 r_angle_refined_deg 1.023 r_scbond_it 0.884 r_scbond_other 0.884 r_angle_other_deg 0.733 r_chiral_restr 0.057 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 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 6497 Nucleic Acid Atoms Solvent Atoms 310 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing