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Mevo lectin complex with mannoheptose (Man7)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7BSB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6 295 Tacsimate pH 6.0, 0.1 M MES monohydrate pH 6.0, 25 % (w/v) PEG 4000
Crystal Properties Matthews coefficient Solvent content 3.49 59.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 168.35 α = 90 b = 168.35 β = 90 c = 104.96 γ = 90
Symmetry Space Group P 42 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2020-04-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54
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 2.22 61.18 99.7 0.39 0.091 0.985 7.8 19.2 73523 16.6
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 2.23 2.35 98 0.813 0.196 0.524 3.2 17.6
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 THROUGHOUT 7BSB 2.228 59.592 73482 3622 99.383 0.248 0.2465 0.2489 0.2667 0.2665 19.837
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] -1.494 -1.494 2.988
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.082 r_dihedral_angle_3_deg 14.75 r_dihedral_angle_4_deg 9.407 r_dihedral_angle_1_deg 8.597 r_lrange_it 5.588 r_lrange_other 5.588 r_scangle_it 3.972 r_scangle_other 3.972 r_mcangle_it 3.837 r_mcangle_other 3.837
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.082 r_dihedral_angle_3_deg 14.75 r_dihedral_angle_4_deg 9.407 r_dihedral_angle_1_deg 8.597 r_lrange_it 5.588 r_lrange_other 5.588 r_scangle_it 3.972 r_scangle_other 3.972 r_mcangle_it 3.837 r_mcangle_other 3.837 r_scbond_it 2.542 r_scbond_other 2.542 r_angle_other_deg 2.405 r_mcbond_it 2.355 r_mcbond_other 2.355 r_angle_refined_deg 1.689 r_nbd_other 0.222 r_symmetry_nbd_other 0.215 r_nbd_refined 0.175 r_nbtor_refined 0.168 r_symmetry_xyhbond_nbd_refined 0.167 r_xyhbond_nbd_refined 0.153 r_symmetry_nbd_refined 0.124 r_symmetry_xyhbond_nbd_other 0.094 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.066 r_bond_other_d 0.036 r_gen_planes_other 0.02 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_chiral_restr_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7427 Nucleic Acid Atoms Solvent Atoms 127 Heterogen Atoms 273
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing