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Understanding how diverse mannanases recognise heterogeneous substrates
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WHJ PDB ENTRY 2WHJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 1.6M NA/K PO4, 0.1M HEPES PH 7.5
Crystal Properties Matthews coefficient Solvent content 2.28 46.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.255 α = 90 b = 63.69 β = 90 c = 83.577 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 CCD ADSC CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.4 19.73 95 0.05 27 3.7 62370 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.45 68 0.2 3.5 2.3
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2WHJ 1.4 50.64 55790 2980 94.2 0.152 0.15 0.1599 0.188 0.2072 RANDOM 16.22
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] 4.52 -2.32 -2.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.176 r_sphericity_free 12.157 r_dihedral_angle_3_deg 11.34 r_dihedral_angle_4_deg 10.432 r_sphericity_bonded 7.546 r_dihedral_angle_1_deg 6.722 r_scangle_it 5.783 r_scbond_it 4.289 r_mcangle_it 2.939 r_rigid_bond_restr 2.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.176 r_sphericity_free 12.157 r_dihedral_angle_3_deg 11.34 r_dihedral_angle_4_deg 10.432 r_sphericity_bonded 7.546 r_dihedral_angle_1_deg 6.722 r_scangle_it 5.783 r_scbond_it 4.289 r_mcangle_it 2.939 r_rigid_bond_restr 2.36 r_mcbond_it 2.167 r_angle_refined_deg 1.96 r_angle_other_deg 1.618 r_mcbond_other 1.261 r_chiral_restr 0.304 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2312 Nucleic Acid Atoms Solvent Atoms 273 Heterogen Atoms 38
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing