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Crystal structure of fungal lipoxygenase from Fusarium graminearum. I222 crystal form.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3RDE PDB entry 3RDE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 11% PEG3350, 0.35 M calcium chloride, 0.1 M Tris
Crystal Properties Matthews coefficient Solvent content 2.43 49.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.931 α = 90 b = 95.537 β = 90 c = 186.249 γ = 90
Symmetry Space Group I 2 2 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 MAR CCD 165 mm MIRRORS 2017-01-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CAMD BEAMLINE GCPCC 1.38079 CAMD GCPCC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.84 50 97.5 0.062 0.972 12.2 7 19682 54
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 2.84 2.92 78.7 0.3 0.911 2.2 5.2
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 PDB entry 3RDE 2.84 47.81 19085 597 98.31 0.23524 0.23408 0.2336 0.2724 0.2673 RANDOM 81.592
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] 1.12 2.87 -4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.565 r_dihedral_angle_4_deg 16.937 r_dihedral_angle_3_deg 16.023 r_dihedral_angle_1_deg 6.516 r_long_range_B_refined 1.476 r_long_range_B_other 1.473 r_angle_refined_deg 1.206 r_angle_other_deg 1.058 r_mcangle_it 0.742 r_mcangle_other 0.742
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.565 r_dihedral_angle_4_deg 16.937 r_dihedral_angle_3_deg 16.023 r_dihedral_angle_1_deg 6.516 r_long_range_B_refined 1.476 r_long_range_B_other 1.473 r_angle_refined_deg 1.206 r_angle_other_deg 1.058 r_mcangle_it 0.742 r_mcangle_other 0.742 r_scangle_other 0.515 r_mcbond_it 0.422 r_mcbond_other 0.422 r_scbond_it 0.294 r_scbond_other 0.284 r_chiral_restr 0.039 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 5040 Nucleic Acid Atoms Solvent Atoms 8 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing