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Crystal structure of leaf branch compost cutinase variant ICCG L50Y T26E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6THT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 293 10 mM Tris, 150 mM NaCl, 0.6 M succinic acid, pH 7.0
Crystal Properties Matthews coefficient Solvent content 3.01 59.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.12 α = 90 b = 97.12 β = 90 c = 73.93 γ = 90
Symmetry Space Group P 41 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 2024-07-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.000 PETRA III, DESY P11
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 1.7 48.58 99.4 0.999 16.52 25.75 1016318
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 1.7 1.8 0.536
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 1.7 48.56 39280 1964 99.579 0.185 0.1839 0.1828 0.2122 0.2123 34.225
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] -0.512 -0.512 1.023
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.742 r_dihedral_angle_3_deg 11.657 r_dihedral_angle_2_deg 8.481 r_dihedral_angle_1_deg 6.986 r_lrange_it 6.358 r_scangle_it 5.185 r_scbond_it 3.929 r_mcangle_it 3.653 r_mcbond_it 3.056 r_angle_refined_deg 1.926
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.742 r_dihedral_angle_3_deg 11.657 r_dihedral_angle_2_deg 8.481 r_dihedral_angle_1_deg 6.986 r_lrange_it 6.358 r_scangle_it 5.185 r_scbond_it 3.929 r_mcangle_it 3.653 r_mcbond_it 3.056 r_angle_refined_deg 1.926 r_nbtor_refined 0.31 r_symmetry_xyhbond_nbd_refined 0.238 r_nbd_refined 0.212 r_xyhbond_nbd_refined 0.181 r_chiral_restr 0.133 r_symmetry_nbd_refined 0.122 r_bond_refined_d 0.012 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1945 Nucleic Acid Atoms Solvent Atoms 227 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing