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Crystal structure of selenomethionine labelled Streptomyces avermitilis endo-beta-1,6-galactanase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 293 17% PEG4000, 20% isopropanol, 0.1 M Sodium citrate pH 5.6
Crystal Properties Matthews coefficient Solvent content 2.11 41.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.173 α = 90 b = 233.013 β = 94.855 c = 87.885 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 95 CCD ADSC QUANTUM 210 2009-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 0.97920 Photon Factory AR-NW12A
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 2 100 98.4 0.149 14.4 8.2 114201
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 2 2.07 0.392 4.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.001 43.769 113931 5701 98.269 0.172 0.1693 0.1764 0.2148 0.221 RANDOM 14.035
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] -0.034 0.011 0.018 0.014
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.218 r_dihedral_angle_3_deg 11.104 r_dihedral_angle_1_deg 7.035 r_dihedral_angle_2_deg 5.735 r_lrange_it 3.567 r_scangle_it 1.619 r_mcangle_it 1.37 r_angle_refined_deg 1.291 r_scbond_it 1.019 r_mcbond_it 0.813
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.218 r_dihedral_angle_3_deg 11.104 r_dihedral_angle_1_deg 7.035 r_dihedral_angle_2_deg 5.735 r_lrange_it 3.567 r_scangle_it 1.619 r_mcangle_it 1.37 r_angle_refined_deg 1.291 r_scbond_it 1.019 r_mcbond_it 0.813 r_nbtor_refined 0.304 r_symmetry_nbd_refined 0.231 r_nbd_refined 0.192 r_symmetry_xyhbond_nbd_refined 0.166 r_xyhbond_nbd_refined 0.141 r_chiral_restr 0.093 r_gen_planes_refined 0.006 r_bond_refined_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14356 Nucleic Acid Atoms Solvent Atoms 1487 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing