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Crystal structures of mutant E46Q of tryptophan 5-halogenase (PyrH)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AQJ PDB ENTRY 2AQJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.2 0.05MM SODIUM CACODYLATE BUFFER, PH 6.2 1.4M LI2SO4, 0.01M MGCL2
Crystal Properties Matthews coefficient Solvent content 3.18 61.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 137.57 α = 90 b = 137.57 β = 90 c = 309.121 γ = 90
Symmetry Space Group P 43 21 2
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 ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 2.5 50 99 0.07 43.6 9.6 103328 2
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 2.5 2.54 99.9 0.35 6 9.4
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 PDB ENTRY 2AQJ 2.5 48.25 98115 5181 99.85 0.19524 0.19344 0.1911 0.22972 0.2264 RANDOM 37.889
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] -1.14 -1.14 2.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.947 r_dihedral_angle_4_deg 20.38 r_dihedral_angle_3_deg 13.824 r_dihedral_angle_1_deg 6.69 r_scangle_it 4.034 r_scbond_it 2.324 r_mcangle_it 1.508 r_angle_refined_deg 1.317 r_mcbond_it 0.728 r_chiral_restr 0.092
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.947 r_dihedral_angle_4_deg 20.38 r_dihedral_angle_3_deg 13.824 r_dihedral_angle_1_deg 6.69 r_scangle_it 4.034 r_scbond_it 2.324 r_mcangle_it 1.508 r_angle_refined_deg 1.317 r_mcbond_it 0.728 r_chiral_restr 0.092 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15948 Nucleic Acid Atoms Solvent Atoms 941 Heterogen Atoms 215
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing