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A novel aminotransferase from Streptomyces sp. Gabaculine complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other previous solved unbound protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.5 292.15 0.2 M Potassium thiocynate
0.1 M Bis_tris propane 6.5
20% w/v PEG 3350
1 mM PLP
Crystal Properties Matthews coefficient Solvent content 2.44 49.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.463 α = 90 b = 177.253 β = 90 c = 112.359 γ = 90
Symmetry Space Group C 2 2 21
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 2022-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 1.31 69.59 99.3 1 16.4 5 237241
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 1.31 1.344 92.3 1 13.3
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-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.31 69.585 237047 11569 99.303 0.166 0.1646 0.185 0.161 24.223
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] -0.007 -1.219 1.227
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.228 r_dihedral_angle_3_deg 11.88 r_dihedral_angle_2_deg 7.599 r_lrange_it 6.895 r_dihedral_angle_1_deg 6.305 r_scangle_it 4.488 r_scbond_it 3.159 r_mcangle_it 3.049 r_mcbond_it 2.069 r_angle_refined_deg 2.014
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.228 r_dihedral_angle_3_deg 11.88 r_dihedral_angle_2_deg 7.599 r_lrange_it 6.895 r_dihedral_angle_1_deg 6.305 r_scangle_it 4.488 r_scbond_it 3.159 r_mcangle_it 3.049 r_mcbond_it 2.069 r_angle_refined_deg 2.014 r_nbtor_refined 0.323 r_nbd_refined 0.223 r_symmetry_nbd_refined 0.21 r_symmetry_xyhbond_nbd_refined 0.173 r_xyhbond_nbd_refined 0.16 r_chiral_restr 0.129 r_ncsr_local_group_1 0.083 r_bond_refined_d 0.013 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7090 Nucleic Acid Atoms Solvent Atoms 1081 Heterogen Atoms 123
Software Software Software Name Purpose REFMAC refinement xia2 data reduction XSCALE data scaling MOLREP phasing