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Crystal Structure of Redesigned HasAsm Variant (48-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, 2.5M NaCl, 0.2M Zinc acetate
Crystal Properties Matthews coefficient Solvent content 3.25 62.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.183 α = 90 b = 69.183 β = 90 c = 86.555 γ = 120
Symmetry Space Group P 31 2 1
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 2025-11-04 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 2.16 43.28 99.9 0.111 0.114 0.026 0.999 21 19.7 13312 49.13
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 2.16 2.23 99.9 1.475 1.511 0.327 0.987 3.7 21.1
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 2.161 35.1 13286 682 99.932 0.222 0.2203 0.2208 0.2547 0.2554 51.431
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] 1.842 0.921 1.842 -5.977
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.719 r_dihedral_angle_6_deg 14.421 r_lrange_other 10.071 r_lrange_it 10.064 r_scangle_it 8.625 r_scangle_other 8.624 r_dihedral_angle_2_deg 7.611 r_dihedral_angle_1_deg 7.08 r_scbond_it 6.566 r_scbond_other 6.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.719 r_dihedral_angle_6_deg 14.421 r_lrange_other 10.071 r_lrange_it 10.064 r_scangle_it 8.625 r_scangle_other 8.624 r_dihedral_angle_2_deg 7.611 r_dihedral_angle_1_deg 7.08 r_scbond_it 6.566 r_scbond_other 6.086 r_mcangle_it 5.593 r_mcangle_other 5.591 r_mcbond_it 4.127 r_mcbond_other 4.107 r_angle_refined_deg 2.03 r_angle_other_deg 0.542 r_symmetry_xyhbond_nbd_refined 0.344 r_nbd_other 0.293 r_symmetry_nbd_refined 0.278 r_xyhbond_nbd_refined 0.251 r_nbd_refined 0.233 r_symmetry_nbd_other 0.216 r_nbtor_refined 0.19 r_symmetry_nbtor_other 0.086 r_chiral_restr 0.07 r_bond_refined_d 0.018 r_gen_planes_other 0.012 r_gen_planes_refined 0.009 r_bond_other_d r_dihedral_angle_other_2_deg
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1295 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms 61
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing