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Crystal structure of cutinase PbauzCut from Pseudomonas bauzanensis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4CG1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M Sodium acetate 4.5,
50 % w/v PEG 400,
0.2 M Lithium sulfate
Crystal Properties Matthews coefficient Solvent content 1.85 33.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.1 α = 90 b = 52.9 β = 106.305 c = 56.748 γ = 90
Symmetry Space Group P 1 21 1
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-F 2018-03-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.91587 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.24 52.9 99.6 0.097 0.063 0.991 6.1 3.2 69263
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.24 1.26 96.6 0.483 0.314 0.563 2 3.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4CG1 1.24 41.367 68414 3323 98.534 0.215 0.2142 0.2238 0.2379 0.2472 8.832
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] -0.221 0.147 -0.442 0.493
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.096 r_dihedral_angle_6_deg 17.678 r_dihedral_angle_3_deg 12.618 r_dihedral_angle_1_deg 7.106 r_lrange_it 4.494 r_lrange_other 4.171 r_angle_refined_deg 1.707 r_scangle_it 1.245 r_scangle_other 1.21 r_scbond_it 0.867
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 24.096 r_dihedral_angle_6_deg 17.678 r_dihedral_angle_3_deg 12.618 r_dihedral_angle_1_deg 7.106 r_lrange_it 4.494 r_lrange_other 4.171 r_angle_refined_deg 1.707 r_scangle_it 1.245 r_scangle_other 1.21 r_scbond_it 0.867 r_scbond_other 0.786 r_mcangle_other 0.709 r_mcangle_it 0.708 r_angle_other_deg 0.595 r_mcbond_it 0.438 r_mcbond_other 0.424 r_xyhbond_nbd_refined 0.25 r_nbd_refined 0.23 r_symmetry_xyhbond_nbd_refined 0.219 r_symmetry_nbd_other 0.193 r_nbtor_refined 0.184 r_nbd_other 0.181 r_symmetry_nbd_refined 0.111 r_chiral_restr 0.09 r_symmetry_nbtor_other 0.083 r_gen_planes_refined 0.011 r_bond_refined_d 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1995 Nucleic Acid Atoms Solvent Atoms 265 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement DIALS data reduction DIALS data scaling MOLREP phasing