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Polysaccharide lyase BtPL33HA (BT4410) Y291A with HA dp4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Unpublished structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 20 % PEG 6000
0.1 M MES
0.1 M Ammonium chloride
20 mg/ml
Crystal Properties Matthews coefficient Solvent content 2.6 52.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.64 α = 90 b = 137.301 β = 90 c = 202.842 γ = 90
Symmetry Space Group P 21 21 21
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 EIGER X 16M 2022-07-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.95373 Diamond I04
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 1.797 113.702 95.4 0.999 14 6.8 122182
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 1.797 1.893 0.698 1.4
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 1.797 113.702 122182 6149 87.05 0.183 0.1806 0.1826 0.2234 0.2243 34.44
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] -0.532 0.027 0.505
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.582 r_dihedral_angle_3_deg 15.185 r_dihedral_angle_2_deg 10.909 r_lrange_it 7.143 r_lrange_other 7.118 r_dihedral_angle_1_deg 6.979 r_scangle_it 5.708 r_scangle_other 5.708 r_scbond_it 4.084 r_scbond_other 4.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.582 r_dihedral_angle_3_deg 15.185 r_dihedral_angle_2_deg 10.909 r_lrange_it 7.143 r_lrange_other 7.118 r_dihedral_angle_1_deg 6.979 r_scangle_it 5.708 r_scangle_other 5.708 r_scbond_it 4.084 r_scbond_other 4.083 r_mcangle_it 3.497 r_mcangle_other 3.497 r_mcbond_it 2.748 r_mcbond_other 2.747 r_angle_refined_deg 2.215 r_angle_other_deg 0.755 r_nbd_other 0.254 r_nbd_refined 0.229 r_symmetry_xyhbond_nbd_refined 0.212 r_symmetry_nbd_other 0.196 r_nbtor_refined 0.189 r_symmetry_nbd_refined 0.182 r_xyhbond_nbd_refined 0.168 r_chiral_restr 0.113 r_symmetry_nbtor_other 0.087 r_metal_ion_refined 0.08 r_symmetry_xyhbond_nbd_other 0.063 r_bond_refined_d 0.014 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9855 Nucleic Acid Atoms Solvent Atoms 700 Heterogen Atoms 129
Software Software Software Name Purpose REFMAC refinement xia2 data reduction STARANISO data scaling MOLREP phasing