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Crystal structure of halogenase PltM in complex with phloroglucinol and FAD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 0.1 M Tris pH 8, 0.2 M NaCl, 0.1 M CaCl2 and 12-17% PEG 8000; after growth soak in the same solution with 0.5 mM FAD and 1 mM phloroglucinol
Crystal Properties Matthews coefficient Solvent content 2.31 46.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.242 α = 90 b = 156.98 β = 90 c = 213.71 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 2016-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.00 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 2.6 50 98.9 0.17 14.04 6 65800 2.17
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 2.6 2.64 99.5 0.663 6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.6 40 62405 3336 97.37 0.20538 0.20286 0.2033 0.25308 0.2485 RANDOM 46.642
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 0.05 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.395 r_dihedral_angle_3_deg 14.275 r_dihedral_angle_4_deg 12.913 r_dihedral_angle_1_deg 5.722 r_long_range_B_refined 4.908 r_long_range_B_other 4.907 r_scangle_other 2.937 r_mcangle_it 2.564 r_mcangle_other 2.564 r_scbond_it 1.671
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.395 r_dihedral_angle_3_deg 14.275 r_dihedral_angle_4_deg 12.913 r_dihedral_angle_1_deg 5.722 r_long_range_B_refined 4.908 r_long_range_B_other 4.907 r_scangle_other 2.937 r_mcangle_it 2.564 r_mcangle_other 2.564 r_scbond_it 1.671 r_scbond_other 1.671 r_mcbond_it 1.496 r_mcbond_other 1.496 r_angle_refined_deg 1.169 r_angle_other_deg 0.892 r_chiral_restr 0.066 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 15796 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 79
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing