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A. niger ManA in covalent complex with pseudotrisaccharide inhibitor
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 298 0.1 M Tris pH 7.8
2.2 M Ammonium Sulfate
Crystal Properties Matthews coefficient Solvent content 2.23 44.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.04 α = 90 b = 68.226 β = 90 c = 73.32 γ = 90
Symmetry Space Group P 21 21 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 EIGER X 4M 2026-05-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-3 0.9677 ESRF MASSIF-3
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 1.419 30.95 99.9 0.988 4.6 5.9 64027
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 1.42 1.44 0.209 6
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 1.419 30.948 64027 3126 99.777 0.181 0.1802 0.1812 0.2009 0.201 12.695
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] 0.553 -0.419 -0.134
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.224 r_dihedral_angle_3_deg 11.02 r_dihedral_angle_1_deg 6.154 r_dihedral_angle_2_deg 5.639 r_lrange_it 4.984 r_lrange_other 4.701 r_scangle_it 3.533 r_scangle_other 3.112 r_scbond_it 2.34 r_scbond_other 2.044
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.224 r_dihedral_angle_3_deg 11.02 r_dihedral_angle_1_deg 6.154 r_dihedral_angle_2_deg 5.639 r_lrange_it 4.984 r_lrange_other 4.701 r_scangle_it 3.533 r_scangle_other 3.112 r_scbond_it 2.34 r_scbond_other 2.044 r_mcangle_other 1.986 r_mcangle_it 1.985 r_angle_refined_deg 1.692 r_mcbond_it 1.274 r_mcbond_other 1.274 r_angle_other_deg 0.608 r_nbd_other 0.249 r_nbd_refined 0.217 r_nbtor_refined 0.188 r_symmetry_nbd_other 0.185 r_symmetry_xyhbond_nbd_refined 0.156 r_symmetry_nbd_refined 0.152 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.087 r_symmetry_nbtor_other 0.081 r_symmetry_xyhbond_nbd_other 0.029 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 2653 Nucleic Acid Atoms Solvent Atoms 308 Heterogen Atoms 102
Software Software Software Name Purpose REFMAC refinement DIALS data reduction xia2 data scaling PHASER phasing