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Crystal Structure of Redesigned HasAsm Variant (51-mutation) with Iron Tetraphenylporphyrin
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 6.5 293 0.1M sodium cacodylate-HCl, 2M ammonium sulfate, 0.2M NaCl
Crystal Properties Matthews coefficient Solvent content 2.42 49.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.282 α = 90 b = 142.558 β = 90 c = 81.231 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 100 PIXEL DECTRIS PILATUS3 X 6M 2025-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1.000 SPring-8 BL45XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 1.8 40.6 99.7 0.092 0.096 0.035 1 16.2 13.6 16787 33.27
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.84 99.3 2.496 2.598 0.715 0.694 1 12.8
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 THROUGHOUT 1.8 40.6 16773 807 99.549 0.26 0.2564 0.2583 0.3301 0.3332 40.922
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] 0.238 -3.274 3.036
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.235 r_dihedral_angle_3_deg 14.872 r_dihedral_angle_6_deg 13.198 r_dihedral_angle_1_deg 7.793 r_lrange_other 7.61 r_lrange_it 7.604 r_scangle_it 5.371 r_scangle_other 5.368 r_mcangle_it 5.128 r_mcangle_other 5.125
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.235 r_dihedral_angle_3_deg 14.872 r_dihedral_angle_6_deg 13.198 r_dihedral_angle_1_deg 7.793 r_lrange_other 7.61 r_lrange_it 7.604 r_scangle_it 5.371 r_scangle_other 5.368 r_mcangle_it 5.128 r_mcangle_other 5.125 r_mcbond_it 3.622 r_mcbond_other 3.617 r_scbond_it 3.529 r_scbond_other 3.527 r_angle_refined_deg 1.614 r_angle_other_deg 0.533 r_nbd_refined 0.24 r_xyhbond_nbd_refined 0.211 r_symmetry_nbd_other 0.206 r_symmetry_nbd_refined 0.194 r_nbtor_refined 0.193 r_nbd_other 0.171 r_symmetry_xyhbond_nbd_refined 0.122 r_symmetry_nbtor_other 0.096 r_chiral_restr 0.074 r_symmetry_xyhbond_nbd_other 0.055 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1226 Nucleic Acid Atoms Solvent Atoms 62 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing