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Flavin-dependent Tryptophan 6-halogenase Thal in complex with tryptophan
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other Thal
Crystallization Crystalization Experiments ID Method pH Temperature Details 2 VAPOR DIFFUSION, SITTING DROP 9 293 0.1 M bicine pH 9.0, 1.6 M K2HPO4/NaH2PO4
protein concentration: ~15 mg/mL
protein buffer:10 mM Tris pH 7.4, 50 mM NaCl and 1 mM TCEP
drop ratio: 1:1 (P:R)
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 136.7 α = 90 b = 136.7 β = 90 c = 144.9 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M-F 2017-05-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.9763 PETRA III, EMBL c/o DESY P13 (MX1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) CC (Half) 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 2.55 50 100 0.172 0.999 15.89 20.59 50056 52.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.55 2.62 100 1.776 0.666 2.07 20.74
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 Thal 2.55 49.77 47558 2462 99.93 0.18118 0.17892 0.1844 0.22506 0.2286 RANDOM 56.068
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] 0.45 0.22 0.45 -1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.638 r_dihedral_angle_4_deg 21.376 r_dihedral_angle_3_deg 15.009 r_long_range_B_refined 8.907 r_long_range_B_other 8.906 r_scangle_other 7.06 r_dihedral_angle_1_deg 6.791 r_mcangle_it 6.356 r_mcangle_other 6.355 r_scbond_it 4.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.638 r_dihedral_angle_4_deg 21.376 r_dihedral_angle_3_deg 15.009 r_long_range_B_refined 8.907 r_long_range_B_other 8.906 r_scangle_other 7.06 r_dihedral_angle_1_deg 6.791 r_mcangle_it 6.356 r_mcangle_other 6.355 r_scbond_it 4.81 r_scbond_other 4.81 r_mcbond_it 4.359 r_mcbond_other 4.359 r_angle_refined_deg 1.265 r_angle_other_deg 0.875 r_chiral_restr 0.061 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 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 8432 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 150
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing