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Crystal structure of an AA9 LPMO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZUD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 150 mM DL-Malic acid pH 7.0, 20% polyethylene glycol 3350.
Crystal Properties Matthews coefficient Solvent content 2.13 42.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.51 α = 83.711 b = 66.407 β = 80.835 c = 86.7 γ = 89.995
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 EIGER2 XE 16M 2021-04-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 1.75 49.55 97.4 0.124 0.148 0.11 0.992 6.5 3.3 80700
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 1.75 1.78 96 0.886 1.048 0.555 0.523 1.5 3.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 3ZUD 1.75 49.55 80699 3981 97.445 0.186 0.1836 0.186 0.2264 0.2309 17.19
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] -0.339 0.064 0.086 -0.82 0.45 1.195
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.818 r_dihedral_angle_4_deg 13.202 r_dihedral_angle_3_deg 11.728 r_dihedral_angle_1_deg 7.492 r_lrange_it 4.022 r_lrange_other 4.022 r_scangle_it 2.732 r_scangle_other 2.731 r_mcangle_it 2.069 r_mcangle_other 2.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.818 r_dihedral_angle_4_deg 13.202 r_dihedral_angle_3_deg 11.728 r_dihedral_angle_1_deg 7.492 r_lrange_it 4.022 r_lrange_other 4.022 r_scangle_it 2.732 r_scangle_other 2.731 r_mcangle_it 2.069 r_mcangle_other 2.069 r_scbond_it 1.782 r_scbond_other 1.781 r_angle_refined_deg 1.534 r_angle_other_deg 1.381 r_mcbond_it 1.369 r_mcbond_other 1.369 r_nbd_refined 0.203 r_symmetry_nbd_other 0.185 r_symmetry_nbd_refined 0.182 r_symmetry_xyhbond_nbd_refined 0.169 r_nbtor_refined 0.165 r_nbd_other 0.165 r_xyhbond_nbd_refined 0.156 r_symmetry_nbtor_other 0.078 r_chiral_restr 0.07 r_metal_ion_refined 0.06 r_bond_refined_d 0.009 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 6819 Nucleic Acid Atoms Solvent Atoms 663 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling MOLREP phasing