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Crystal structure of the endo-1,4-glucanase RBcel1 E135A with cellotriose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EE9 4EE9 polyalanine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 292 Crystals were grown at 19 C using the hanging drop method by mixing 2 uL of protein solution (385 uM of protein in 20 mM NaPi pH 6.5 and cellotriose 5 mM) , with 2 uL of resevoir buffer (100 mM Tris HCl pH 7.4 with 17.5 pc w/v polyethylene glycol 600) containing seeds. Crystals were cryoprotected by equilibrating 2 hours the drop against 500 uL reservoir containing 0.1M Tris PEG 600 30pc pH 7.4.
Crystal Properties Matthews coefficient Solvent content 2.32 46.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.69 α = 90 b = 99.31 β = 90 c = 148.58 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 QUANTUM 315r 2015-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.9801 SOLEIL PROXIMA 2
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 1.73 47.09 99 0.093 15.81 8.6 70572 20.2870816768
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 1.73 1.8 94 0.86 2.54 8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4EE9 polyalanine 1.73439601224 38.918562621 1.35787498699 70563 3529 99.3397342043 0.177417744335 0.175578724123 0.1791 0.212305648019 0.2183 24.3568679699
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 10.7941097506 f_angle_d 0.920329285218 f_chiral_restr 0.0564654844079 f_plane_restr 0.00658217571003 f_bond_d 0.00643096369537
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5065 Nucleic Acid Atoms Solvent Atoms 821 Heterogen Atoms 68
Software Software Software Name Purpose XDS data reduction XSCALE data scaling PHASER phasing PHENIX model building Coot model building PHENIX refinement