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Hyper-thermostable ancestral L-amino acid oxidase 2 (HTAncLAAO2)
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 7 277 10% PEG3350, 0.2 M ammonium citrate tribasic, and 4%(v/v) 1,1,1,3,3,3-Hexafluoro-2-propanol
Crystal Properties Matthews coefficient Solvent content 2.66 53.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 180.896 α = 90 b = 180.896 β = 90 c = 81.41 γ = 90
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 PILATUS 2M-F 2022-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.00 Photon Factory BL-5A
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 2.2 48.5 100 0.999 21.5 20 133518
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 2.2 2.35 0.952 5.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.201 48.5 133518 6626 99.965 0.169 0.1674 0.1745 0.2001 0.2057 28.147
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] -0.001 -0.001 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.349 r_dihedral_angle_3_deg 14.777 r_dihedral_angle_4_deg 14.109 r_dihedral_angle_1_deg 7.045 r_lrange_it 6.019 r_lrange_other 5.925 r_scangle_it 4.566 r_scangle_other 4.566 r_mcangle_it 3.58 r_mcangle_other 3.579
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.349 r_dihedral_angle_3_deg 14.777 r_dihedral_angle_4_deg 14.109 r_dihedral_angle_1_deg 7.045 r_lrange_it 6.019 r_lrange_other 5.925 r_scangle_it 4.566 r_scangle_other 4.566 r_mcangle_it 3.58 r_mcangle_other 3.579 r_scbond_other 3.051 r_scbond_it 3.05 r_mcbond_it 2.532 r_mcbond_other 2.532 r_angle_refined_deg 1.518 r_angle_other_deg 1.328 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.183 r_symmetry_nbd_other 0.179 r_nbtor_refined 0.172 r_symmetry_xyhbond_nbd_refined 0.127 r_nbd_other 0.104 r_symmetry_nbtor_other 0.078 r_chiral_restr 0.077 r_symmetry_nbd_refined 0.075 r_ncsr_local_group_3 0.065 r_ncsr_local_group_5 0.064 r_ncsr_local_group_6 0.061 r_ncsr_local_group_2 0.056 r_ncsr_local_group_4 0.056 r_ncsr_local_group_1 0.052 r_chiral_restr_other 0.046 r_symmetry_xyhbond_nbd_other 0.044 r_bond_refined_d 0.009 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16068 Nucleic Acid Atoms Solvent Atoms 1683 Heterogen Atoms 212
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing