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Cellulomonas fimi Xylanase/Cellulase Cex (Cf Xyn10A) in complex with cellobiose-like isofagomine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2EXO PDB entry 2EXO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 PEG4000, sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP,temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.12 41.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.668 α = 90 b = 85.668 β = 90 c = 79.179 γ = 90
Symmetry Space Group P 41 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 MARRESEARCH 2003-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54
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 1.66 30 99 0.052 13 12 35903 35544
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) 1.66 1.7 85.5 0.268 2013
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 2EXO 1.67 25.63 35903 34756 2038 99.95 0.158 0.156 0.1575 0.188 0.1543 RANDOM 17.452
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 r_dihedral_angle_2_deg 28.825 r_dihedral_angle_4_deg 16.741 r_dihedral_angle_3_deg 11.094 r_dihedral_angle_1_deg 5.783 r_scangle_it 2.889 r_scbond_it 1.93 r_angle_refined_deg 1.332 r_mcangle_it 1.234 r_mcbond_it 0.853 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.825 r_dihedral_angle_4_deg 16.741 r_dihedral_angle_3_deg 11.094 r_dihedral_angle_1_deg 5.783 r_scangle_it 2.889 r_scbond_it 1.93 r_angle_refined_deg 1.332 r_mcangle_it 1.234 r_mcbond_it 0.853 r_nbtor_refined 0.309 r_nbd_refined 0.201 r_symmetry_vdw_refined 0.185 r_symmetry_hbond_refined 0.139 r_xyhbond_nbd_refined 0.118 r_chiral_restr 0.094 r_bond_refined_d 0.013 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2423 Nucleic Acid Atoms Solvent Atoms 377 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement DENZO data reduction PDB_EXTRACT data extraction MAR345dtb data collection CNS phasing