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Teth514_1788 1,2-beta-oligomannan phosphorylase in complex with mannotetraose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model SwissModel
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 285 1.4M Ammonium Sulphate
0.2M NaCl
0.1M Na Cacodylate pH 6.5
Crystal Properties Matthews coefficient Solvent content 6.73 81.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 137.338 α = 90 b = 137.338 β = 90 c = 168.951 γ = 120
Symmetry Space Group P 32 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 PIXEL DECTRIS PILATUS 6M 2019-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.9793 ALBA XALOC
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 50 100 0.107 0.996 5.2 8.1 82187
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 2.3 2.42 0.56 0.925
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 2.3 48.675 82136 4054 99.95 0.17 0.1693 0.1756 0.1844 0.1881 34.006
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] 0.645 0.323 0.645 -2.094
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.556 r_dihedral_angle_6_deg 12.871 r_dihedral_angle_1_deg 7.281 r_dihedral_angle_2_deg 5.147 r_lrange_it 4.446 r_lrange_other 4.056 r_scangle_other 2.599 r_scangle_it 2.595 r_mcangle_it 1.848 r_mcangle_other 1.848
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.556 r_dihedral_angle_6_deg 12.871 r_dihedral_angle_1_deg 7.281 r_dihedral_angle_2_deg 5.147 r_lrange_it 4.446 r_lrange_other 4.056 r_scangle_other 2.599 r_scangle_it 2.595 r_mcangle_it 1.848 r_mcangle_other 1.848 r_scbond_it 1.479 r_scbond_other 1.479 r_angle_refined_deg 1.085 r_mcbond_it 1.07 r_mcbond_other 1.069 r_angle_other_deg 0.425 r_symmetry_nbd_other 0.205 r_nbd_refined 0.176 r_nbtor_refined 0.173 r_nbd_other 0.116 r_xyhbond_nbd_refined 0.108 r_symmetry_xyhbond_nbd_refined 0.09 r_symmetry_nbtor_other 0.082 r_chiral_restr 0.052 r_ncsr_local_group_1 0.052 r_symmetry_nbd_refined 0.034 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4807 Nucleic Acid Atoms Solvent Atoms 577 Heterogen Atoms 117
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing