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Crystal Structure of the flavoprotein monooxygenase TrlE from Streptomyces cyaneofuscatus Soc7
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 8.5 293.15 0.1 M BIS-TRIS propane pH 8.5
0.25 M Na2SO4
15% w/v PEG3350
Crystal Properties Matthews coefficient Solvent content 2.96 58.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.9 α = 90 b = 112.9 β = 90 c = 148.57 γ = 120
Symmetry Space Group P 31 2 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 EIGER X 16M 2022-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.00003 SLS X06SA
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 2.5 50 99.93 0.999 14.02 20.6 38458
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 2.5 2.589 0.554
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 2.5 49.572 38452 1923 99.964 0.194 0.1912 0.198 0.2385 0.2421 64.575
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] 0.036 0.018 0.036 -0.118
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.321 r_dihedral_angle_6_deg 15.3 r_lrange_it 10.855 r_lrange_other 10.853 r_dihedral_angle_2_deg 10.012 r_scangle_it 8.994 r_scangle_other 8.909 r_mcangle_it 8.15 r_mcangle_other 8.149 r_dihedral_angle_1_deg 6.929
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.321 r_dihedral_angle_6_deg 15.3 r_lrange_it 10.855 r_lrange_other 10.853 r_dihedral_angle_2_deg 10.012 r_scangle_it 8.994 r_scangle_other 8.909 r_mcangle_it 8.15 r_mcangle_other 8.149 r_dihedral_angle_1_deg 6.929 r_scbond_it 6.273 r_scbond_other 6.211 r_mcbond_it 5.773 r_mcbond_other 5.756 r_angle_refined_deg 1.365 r_dihedral_angle_other_2_deg 0.667 r_angle_other_deg 0.451 r_nbd_refined 0.202 r_symmetry_nbd_other 0.193 r_nbd_other 0.182 r_nbtor_refined 0.176 r_symmetry_xyhbond_nbd_refined 0.167 r_xyhbond_nbd_refined 0.143 r_symmetry_nbd_refined 0.139 r_symmetry_nbtor_other 0.079 r_ncsr_local_group_1 0.079 r_chiral_restr 0.06 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_symmetry_xyhbond_nbd_other 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5761 Nucleic Acid Atoms Solvent Atoms 158 Heterogen Atoms 123
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing