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BV333 aminotransferase from Streptomyces sp. mutant W89A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9GH9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 292.15 Morpheus Fusion Screen A7
Crystal Properties Matthews coefficient Solvent content 2.4 48.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.825 α = 66.943 b = 90.242 β = 73.259 c = 99.446 γ = 69.644
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113.15 PIXEL DECTRIS EIGER X 16M 2023-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.852 Diamond I04
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 1.24 80.02 94.84 0.11 1 13.7 3.6 515140
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 1.24 1.26 93 2.822 1 0.5 3.7
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 1.24 80.02 506909 2004 94.85 0.171 0.171 0.1762 0.1954 0.1991 24.017
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] 2.051 1.462 0.489 0.232 0.521 -0.534
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.699 r_dihedral_angle_3_deg 11.7 r_dihedral_angle_2_deg 8.879 r_lrange_it 7.848 r_dihedral_angle_1_deg 6.247 r_scangle_it 5.057 r_scbond_it 3.602 r_mcangle_it 3.431 r_mcbond_it 2.282 r_angle_refined_deg 1.849
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.699 r_dihedral_angle_3_deg 11.7 r_dihedral_angle_2_deg 8.879 r_lrange_it 7.848 r_dihedral_angle_1_deg 6.247 r_scangle_it 5.057 r_scbond_it 3.602 r_mcangle_it 3.431 r_mcbond_it 2.282 r_angle_refined_deg 1.849 r_nbtor_refined 0.322 r_symmetry_nbd_refined 0.296 r_nbd_refined 0.233 r_symmetry_xyhbond_nbd_refined 0.192 r_xyhbond_nbd_refined 0.142 r_metal_ion_refined 0.136 r_chiral_restr 0.124 r_ncsr_local_group_4 0.075 r_ncsr_local_group_2 0.073 r_ncsr_local_group_3 0.071 r_ncsr_local_group_6 0.071 r_ncsr_local_group_5 0.07 r_ncsr_local_group_1 0.069 r_bond_refined_d 0.011 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14259 Nucleic Acid Atoms Solvent Atoms 1270 Heterogen Atoms 726
Software Software Software Name Purpose REFMAC refinement DIALS data reduction DIALS data scaling MoRDa phasing