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Crystal structure of Ruminococcus flavefaciens scaffoldin C cohesin in complex with a dockerin from an uncharacterized CBM-containing protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CCL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 0.1 M potassium thiocyanate, 30% w/v PEG 2000 MME
Crystal Properties Matthews coefficient Solvent content 1.92 36.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.59 α = 90 b = 66.73 β = 90 c = 109.6 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 PIXEL DECTRIS PILATUS 6M-F 2014-02-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 Diamond I04-1
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 2.4 59.59 97.6 0.08 0.985 51.7 4 17195
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 2.4 2.5 99.3 0.321 0.936 4
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 2CCL 2.4 57 16238 842 96.56 0.2188 0.2167 0.2231 0.2598 0.2642 RANDOM 35.648
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] -1.2 0.45 0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.957 r_dihedral_angle_4_deg 11.941 r_dihedral_angle_3_deg 10.524 r_dihedral_angle_1_deg 5.372 r_mcangle_it 1.426 r_angle_refined_deg 0.949 r_mcbond_it 0.815 r_mcbond_other 0.813 r_angle_other_deg 0.755 r_chiral_restr 0.056
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.957 r_dihedral_angle_4_deg 11.941 r_dihedral_angle_3_deg 10.524 r_dihedral_angle_1_deg 5.372 r_mcangle_it 1.426 r_angle_refined_deg 0.949 r_mcbond_it 0.815 r_mcbond_other 0.813 r_angle_other_deg 0.755 r_chiral_restr 0.056 r_bond_refined_d 0.005 r_bond_other_d 0.002 r_gen_planes_refined 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3538 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PHASER phasing PDB_EXTRACT data extraction iMOSFLM data reduction