☰ Navigation Tabs
Crystal structure of Multi-functional Polysaccharide lyase Smlt1473 (WT) from Stenotrophomonas maltophilia (strain K279a) in apo form at pH 7.0
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7FHU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298.15 0.2M LiSO4 Monohydrdate, 100mM Sodium Cacodylate, pH-7.0, 30% (w/v) PEG 8000
Crystal Properties Matthews coefficient Solvent content 2.25 45.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.652 α = 71.144 b = 57.943 β = 89.711 c = 67.569 γ = 73.787
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CMOS BRUKER PHOTON 100 2019-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR-H 1.54178
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.2 29.09 98.7 0.1422 0.991 9.33 5.24 30028
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.3 97 0.4453 0.74 2.94 3.24
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 7FHU 2.2 29.052 29907 1489 98.336 0.223 0.2208 0.2289 0.2577 0.265 24.383
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] 2.658 -0.897 0.242 0.121 0.123 -2.566
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.657 r_dihedral_angle_4_deg 16.923 r_dihedral_angle_3_deg 13.695 r_dihedral_angle_1_deg 6.23 r_lrange_it 5.553 r_lrange_other 5.534 r_scangle_it 3.528 r_scangle_other 3.527 r_mcangle_other 3.198 r_mcangle_it 3.196
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.657 r_dihedral_angle_4_deg 16.923 r_dihedral_angle_3_deg 13.695 r_dihedral_angle_1_deg 6.23 r_lrange_it 5.553 r_lrange_other 5.534 r_scangle_it 3.528 r_scangle_other 3.527 r_mcangle_other 3.198 r_mcangle_it 3.196 r_scbond_it 2.224 r_scbond_other 2.217 r_mcbond_it 2.029 r_mcbond_other 2.024 r_angle_refined_deg 1.568 r_angle_other_deg 1.332 r_symmetry_xyhbond_nbd_refined 0.282 r_symmetry_nbd_refined 0.252 r_nbd_other 0.218 r_nbd_refined 0.216 r_symmetry_nbd_other 0.188 r_xyhbond_nbd_refined 0.169 r_nbtor_refined 0.165 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4777 Nucleic Acid Atoms Solvent Atoms 171 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement PROTEUM PLUS data reduction PROTEUM PLUS data scaling PHASER phasing