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X-ray crystal structure of an LPMO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EIR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 3.5 293 3.0 M SODIUM CHLORIDE
0.1 M CITRIC ACID PH3.5
Crystal Properties Matthews coefficient Solvent content 3.27 62.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.33 α = 90 b = 125.33 β = 90 c = 125.33 γ = 90
Symmetry Space Group P 41 3 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2015-01-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-3 1.00000 MAX II I911-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 1.76 20 99.9 0.109 1 36.29 40.6 33938
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.76 1.81 100 1.028 0.819 2.77 14.6
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4EIR 1.76 88.62 32156 1720 99.89 0.15981 0.15831 0.1701 0.18677 0.1935 RANDOM 18.278
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.704 r_dihedral_angle_3_deg 10.301 r_dihedral_angle_4_deg 9.138 r_dihedral_angle_1_deg 6.618 r_long_range_B_refined 6.135 r_long_range_B_other 5.031 r_scangle_other 2.557 r_mcangle_other 1.886 r_mcangle_it 1.881 r_scbond_it 1.638
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.704 r_dihedral_angle_3_deg 10.301 r_dihedral_angle_4_deg 9.138 r_dihedral_angle_1_deg 6.618 r_long_range_B_refined 6.135 r_long_range_B_other 5.031 r_scangle_other 2.557 r_mcangle_other 1.886 r_mcangle_it 1.881 r_scbond_it 1.638 r_scbond_other 1.637 r_angle_refined_deg 1.575 r_mcbond_it 1.278 r_mcbond_other 1.265 r_angle_other_deg 0.879 r_chiral_restr 0.104 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1788 Nucleic Acid Atoms Solvent Atoms 413 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing