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Crystal Structure of HEWL in complex with Cinnamaldehyde (in the aroma form) after 5 hours under fibrillation conditions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DPX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 292 0.1 M sodium acetate pH 4.6, 1.2 M NaCl
Crystal Properties Matthews coefficient Solvent content 1.97 37.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.22 α = 90 b = 78.22 β = 90 c = 36.89 γ = 90
Symmetry Space Group P 43 21 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 PIXEL DECTRIS PILATUS 6M 2018-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.953 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.8 55.31 100 0.194 7.2 7.9 11116
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 0.325
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 1dpx 1.8 55.31 10546 535 99.96 0.15733 0.15467 0.1666 0.20694 0.2089 RANDOM 19.475
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] -0.01 -0.01 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.899 r_dihedral_angle_4_deg 21.964 r_dihedral_angle_3_deg 13.502 r_long_range_B_refined 7.189 r_long_range_B_other 7.187 r_dihedral_angle_1_deg 6.316 r_scangle_other 3.827 r_scbond_it 2.489 r_scbond_other 2.487 r_angle_other_deg 2.169
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.899 r_dihedral_angle_4_deg 21.964 r_dihedral_angle_3_deg 13.502 r_long_range_B_refined 7.189 r_long_range_B_other 7.187 r_dihedral_angle_1_deg 6.316 r_scangle_other 3.827 r_scbond_it 2.489 r_scbond_other 2.487 r_angle_other_deg 2.169 r_angle_refined_deg 2.074 r_mcangle_it 2.013 r_mcangle_other 2.012 r_mcbond_it 1.398 r_mcbond_other 1.394 r_chiral_restr 0.144 r_gen_planes_other 0.031 r_bond_refined_d 0.02 r_gen_planes_refined 0.02 r_bond_other_d 0.012 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 1000 Nucleic Acid Atoms Solvent Atoms 211 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing