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Muramidase from Kionochaeta sp natural catalytic core
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.9 M sodium acetate, Hepes pH 7.5, 40 mM CdCl2
Crystal Properties Matthews coefficient Solvent content 3.07 59.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.521 α = 90 b = 61.521 β = 90 c = 85.188 γ = 120
Symmetry Space Group P 31 2 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 CCD ADSC QUANTUM 315 2017-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.1 53.28 94.1 0.044 0.049 0.021 0.999 22.7 9.4 71381
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.1 1.12 66.4 0.676 0.775 0.369 0.726 2.1 6.4
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 SAD THROUGHOUT 1.1 53.279 71362 3492 93.719 0.113 0.1128 0.1122 0.1239 0.1227 13.631
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] 0.322 0.161 0.322 -1.044
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 20.471 r_dihedral_angle_3_deg 12.483 r_dihedral_angle_1_deg 5.08 r_rigid_bond_restr 4.513 r_lrange_it 4.062 r_dihedral_angle_2_deg 3.604 r_lrange_other 3.465 r_scangle_it 2.883 r_scangle_other 2.881 r_scbond_it 2.353
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 20.471 r_dihedral_angle_3_deg 12.483 r_dihedral_angle_1_deg 5.08 r_rigid_bond_restr 4.513 r_lrange_it 4.062 r_dihedral_angle_2_deg 3.604 r_lrange_other 3.465 r_scangle_it 2.883 r_scangle_other 2.881 r_scbond_it 2.353 r_scbond_other 2.35 r_angle_refined_deg 1.664 r_mcangle_it 1.252 r_mcangle_other 1.251 r_mcbond_it 1.084 r_mcbond_other 1.084 r_angle_other_deg 0.59 r_symmetry_xyhbond_nbd_refined 0.452 r_nbd_refined 0.272 r_xyhbond_nbd_refined 0.26 r_nbtor_refined 0.179 r_symmetry_nbd_other 0.169 r_nbd_other 0.148 r_chiral_restr 0.097 r_symmetry_nbd_refined 0.087 r_symmetry_nbtor_other 0.071 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1044 Nucleic Acid Atoms Solvent Atoms 210 Heterogen Atoms 2
Software Software Software Name Purpose XDS data reduction xia2 data reduction Aimless data scaling CRANK2 phasing REFMAC refinement