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Crystal structure of leaf branch compost cutinase variant ICCG L50Y Q238K
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 2.97 58.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.32 α = 90 b = 97.32 β = 90 c = 72.48 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 PILATUS3 6M 2024-07-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.0000 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 1.8 48.66 100 1 27.92 26.49 870560
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 1.8 1.91 0.767
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 1.8 48.66 32724 1637 99.701 0.177 0.1749 0.1749 0.2129 0.213 37.265
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] -1.433 -1.433 2.867
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.879 r_dihedral_angle_3_deg 11.542 r_lrange_it 10.889 r_dihedral_angle_2_deg 7.986 r_dihedral_angle_1_deg 6.964 r_scangle_it 5.64 r_scbond_it 4.477 r_mcangle_it 4.08 r_mcbond_it 3.341 r_angle_refined_deg 1.927
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.879 r_dihedral_angle_3_deg 11.542 r_lrange_it 10.889 r_dihedral_angle_2_deg 7.986 r_dihedral_angle_1_deg 6.964 r_scangle_it 5.64 r_scbond_it 4.477 r_mcangle_it 4.08 r_mcbond_it 3.341 r_angle_refined_deg 1.927 r_nbtor_refined 0.317 r_nbd_refined 0.228 r_symmetry_nbd_refined 0.214 r_xyhbond_nbd_refined 0.202 r_symmetry_xyhbond_nbd_refined 0.201 r_chiral_restr 0.119 r_bond_refined_d 0.01 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1943 Nucleic Acid Atoms Solvent Atoms 206 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing