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Crystal Structure of Redesigned HasAsm Variant (51-mutation) with Heme
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 8 293 0.1M imidazole-HCl, 1M sodium citrate tribasic
Crystal Properties Matthews coefficient Solvent content 2.33 47.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.357 α = 90 b = 140.528 β = 90 c = 80.708 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 1.22 35 99.9 0.145 0.152 0.043 0.998 12.3 12.9 51927 11.11
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.22 1.24 99.4 0.876 0.659 1.6 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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.22 35 51900 2633 99.783 0.156 0.1549 0.1547 0.1775 0.178 17.589
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] -0.267 -0.04 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.516 r_lrange_it 12.246 r_lrange_other 12.055 r_scangle_it 10.369 r_scangle_other 10.365 r_dihedral_angle_3_deg 10.296 r_dihedral_angle_2_deg 10.131 r_scbond_other 7.427 r_scbond_it 7.391 r_mcangle_other 6.578
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.516 r_lrange_it 12.246 r_lrange_other 12.055 r_scangle_it 10.369 r_scangle_other 10.365 r_dihedral_angle_3_deg 10.296 r_dihedral_angle_2_deg 10.131 r_scbond_other 7.427 r_scbond_it 7.391 r_mcangle_other 6.578 r_mcangle_it 6.569 r_dihedral_angle_1_deg 6.004 r_mcbond_it 4.61 r_mcbond_other 4.578 r_rigid_bond_restr 4.198 r_angle_refined_deg 1.935 r_angle_other_deg 0.687 r_dihedral_angle_other_2_deg 0.657 r_symmetry_nbd_refined 0.294 r_metal_ion_refined 0.269 r_nbd_refined 0.226 r_nbd_other 0.22 r_symmetry_nbd_other 0.195 r_nbtor_refined 0.187 r_xyhbond_nbd_refined 0.171 r_symmetry_xyhbond_nbd_refined 0.145 r_chiral_restr 0.107 r_symmetry_metal_ion_refined 0.104 r_symmetry_nbtor_other 0.084 r_symmetry_xyhbond_nbd_other 0.03 r_bond_refined_d 0.011 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1282 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing