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The complexity of the Ruminococcus flavefaciens cellulosome reflects an expansion in glycan recognition
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5AOT PDB ENTRY 5AOT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 20 MM NA FORMATE 20MM NH4 ACETATE 20 MM NA3 CITRATE 20 MM NAK TARTRATE (RACEMIC) 20 MM NA OXAMATE 50 MM IMIDAZOLE 50 MM MES PH 6.5 12.5% MPD 12.5% PEG 1000 12.5% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.03 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.914 α = 90 b = 54.753 β = 94.67 c = 43.986 γ = 90
Symmetry Space Group P 1 21 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 2015-09-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 1.61 43.84 99.5 0.04 17.5 3.6 24439 1.5
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 1.61 1.64 99.6 0.67 1.6 3.5
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 5AOT 1.61 43.84 23157 1270 99.41 0.19837 0.19494 0.2009 0.25968 0.27 RANDOM 20.17
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] 1.01 -1.76 -0.95 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.684 r_sphericity_free 30.705 r_sphericity_bonded 18.447 r_dihedral_angle_3_deg 13.469 r_dihedral_angle_1_deg 7.956 r_dihedral_angle_4_deg 5.079 r_rigid_bond_restr 4.06 r_scbond_it 3.709 r_mcangle_it 3.143 r_mcbond_it 2.553
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.684 r_sphericity_free 30.705 r_sphericity_bonded 18.447 r_dihedral_angle_3_deg 13.469 r_dihedral_angle_1_deg 7.956 r_dihedral_angle_4_deg 5.079 r_rigid_bond_restr 4.06 r_scbond_it 3.709 r_mcangle_it 3.143 r_mcbond_it 2.553 r_mcbond_other 2.519 r_angle_refined_deg 1.823 r_angle_other_deg 0.932 r_chiral_restr 0.107 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 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_it 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 1509 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing