☰ Navigation Tabs
Crystal structure of halogenase PltM L111Y mutant in complex with FAD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6BZN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 294 0.1 M Tris pH 8, 0.2 M NaBr, 0.1 M CaCl2 and 14% PEG 8000, cryoprotection in same except for additional 20% PEG 400 and 1 mM FAD overnight
Crystal Properties Matthews coefficient Solvent content 2.3 46.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.974 α = 90 b = 157.462 β = 90 c = 213.036 γ = 90
Symmetry Space Group P 21 21 21
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 MX300-HS 2017-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
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 2.1 50 94.7 0.197 10.7 5.4 119974 1.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.14 92.6 0.568 4.3
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 6BZN 2.1 35 113768 5971 94.71 0.2091 0.20726 0.2128 0.2442 0.2494 RANDOM 24.901
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] 0.04 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.131 r_dihedral_angle_3_deg 14.408 r_dihedral_angle_4_deg 12.548 r_dihedral_angle_1_deg 5.955 r_long_range_B_refined 3.104 r_long_range_B_other 2.953 r_mcangle_it 1.225 r_mcangle_other 1.225 r_angle_refined_deg 1.219 r_scangle_other 0.978
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.131 r_dihedral_angle_3_deg 14.408 r_dihedral_angle_4_deg 12.548 r_dihedral_angle_1_deg 5.955 r_long_range_B_refined 3.104 r_long_range_B_other 2.953 r_mcangle_it 1.225 r_mcangle_other 1.225 r_angle_refined_deg 1.219 r_scangle_other 0.978 r_angle_other_deg 0.917 r_mcbond_it 0.662 r_mcbond_other 0.662 r_scbond_it 0.533 r_scbond_other 0.533 r_chiral_restr 0.068 r_bond_refined_d 0.007 r_bond_other_d 0.006 r_gen_planes_refined 0.004 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 15844 Nucleic Acid Atoms Solvent Atoms 943 Heterogen Atoms 228
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing