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TylHI in complex with native substrate 23-deoxy-5-O-mycaminosyl-tylonolide (23-DMTL)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5FOI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 14% PEG MME 550, 0.1 M HEPES, pH 7.5, 6 mM glutathione
Crystal Properties Matthews coefficient Solvent content 2.86 57.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.73 α = 90 b = 109.24 β = 90 c = 150.06 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 110 PIXEL DECTRIS PILATUS3 S 6M MIRRORS 2016-09-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11587 ALS 8.3.1
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 1.99 88.47 95.5 0.07 14.63 6.2 69968 47.1
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 1.99 2.04 69.7 1.74 0.58 3.2
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 5FOI 1.99 88.47 66461 3507 95.63 0.1962 0.1939 0.1973 0.24 0.2358 RANDOM 46.516
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] -0.91 1.73 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.156 r_dihedral_angle_4_deg 19.069 r_dihedral_angle_3_deg 15.347 r_dihedral_angle_1_deg 6.132 r_angle_refined_deg 1.966 r_angle_other_deg 0.915 r_chiral_restr 0.119 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.156 r_dihedral_angle_4_deg 19.069 r_dihedral_angle_3_deg 15.347 r_dihedral_angle_1_deg 6.132 r_angle_refined_deg 1.966 r_angle_other_deg 0.915 r_chiral_restr 0.119 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5847 Nucleic Acid Atoms Solvent Atoms 234 Heterogen Atoms 281
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction