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Trp-5-Hal - Consensus designed artificial tryptophan-5-halogenase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 100 mM sodium HEPES pH 7.5, polyethylene glycol 10000 (20% w/v)
Crystal Properties Matthews coefficient Solvent content 2.27 45.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.07 α = 90 b = 140.834 β = 110.141 c = 89.195 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 PIXEL DECTRIS PILATUS 6M-F 2023-10-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.95374 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 71.98 97.4 0.999 26.1 6.3 135323
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 2.03 0.872
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2 71.98 135289 6866 97.339 0.176 0.1745 0.1825 0.2123 0.2169 36.897
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] -0.817 -0.037 -0.355 0.946
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.857 r_dihedral_angle_3_deg 13.493 r_dihedral_angle_2_deg 9.4 r_lrange_it 8.384 r_lrange_other 8.375 r_scangle_it 6.635 r_scangle_other 6.635 r_dihedral_angle_1_deg 6.501 r_mcangle_it 4.656 r_mcangle_other 4.656
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.857 r_dihedral_angle_3_deg 13.493 r_dihedral_angle_2_deg 9.4 r_lrange_it 8.384 r_lrange_other 8.375 r_scangle_it 6.635 r_scangle_other 6.635 r_dihedral_angle_1_deg 6.501 r_mcangle_it 4.656 r_mcangle_other 4.656 r_scbond_it 4.518 r_scbond_other 4.517 r_mcbond_it 3.441 r_mcbond_other 3.441 r_angle_refined_deg 1.51 r_angle_other_deg 0.841 r_nbd_other 0.233 r_nbd_refined 0.22 r_symmetry_nbd_other 0.213 r_nbtor_refined 0.185 r_xyhbond_nbd_refined 0.167 r_symmetry_nbd_refined 0.155 r_symmetry_xyhbond_nbd_refined 0.145 r_symmetry_xyhbond_nbd_other 0.141 r_ncsr_local_group_2 0.09 r_ncsr_local_group_3 0.086 r_ncsr_local_group_1 0.085 r_symmetry_nbtor_other 0.084 r_ncsr_local_group_4 0.083 r_ncsr_local_group_5 0.08 r_chiral_restr 0.078 r_ncsr_local_group_6 0.068 r_gen_planes_other 0.009 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16126 Nucleic Acid Atoms Solvent Atoms 1102 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing