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Enzyme-Substrate interactions of IXT6, the intracellular xylanase of G. stearothermophilus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Q8X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.1M sodium cacodylate pH=6.5, 1.9M soduim acetate, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.49 64.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 169.228 α = 90 b = 80.771 β = 91.73 c = 79.056 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 CCD ADSC QUANTUM 4 2010-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 1.100 NSLS X26C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.5 36.44 95.9 0.069 25.18 6.76 162613 131154 11.4 21.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.53 93.8 0.495 2.07 19553
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION The same IXT6 only with xylotiose, using rigid and annealing THROUGHOUT 2Q8X 1.5 36.44 131154 131154 6611 93.6 0.187 0.2036 0.202 0.2124 RANDOM 23.2
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] -6.46 -0.69 8.61 -2.15
RMS Deviations Key Refinement Restraint Deviation DIHEDRAL ANGLES 22 BOND ANGLES 1.3 IMPROPER ANGLES 0.81 BOND LENGTHS 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5392 Nucleic Acid Atoms Solvent Atoms 618 Heterogen Atoms 82
Software Software Software Name Purpose DENZO data reduction CNS refinement SCALEPACK data scaling CNS phasing