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Crystal structure of the first GH20 domain of a novel Beta-N-acetyl-hexosaminidase StrH from Streptococcus pneumoniae R6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 289 30% PEG 4000, 0.2M ammonium acetate, 0.1M Sodium citrate tribasic dehydrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 4.53 72.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 173.984 α = 90 b = 173.984 β = 90 c = 108.204 γ = 120
Symmetry Space Group P 31 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 100 CCD MARMOSAIC 225 mm CCD 2009-12-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.97893 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.1 50 98.2 0.109 0.121 21.3 10.9 209284 -3 36.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.14 86.7 0.475 0.493 3.7 8.2 9191
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.1 45.56 202926 5324 97.37 0.19312 0.19165 0.1875 0.22133 0.2155 RANDOM 36.949
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] -1.99 -0.99 -1.99 2.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.674 r_dihedral_angle_4_deg 15.637 r_dihedral_angle_3_deg 13.599 r_dihedral_angle_1_deg 5.957 r_scangle_it 3.371 r_scbond_it 2.248 r_mcangle_it 1.309 r_angle_refined_deg 1.192 r_mcbond_it 0.693 r_chiral_restr 0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.674 r_dihedral_angle_4_deg 15.637 r_dihedral_angle_3_deg 13.599 r_dihedral_angle_1_deg 5.957 r_scangle_it 3.371 r_scbond_it 2.248 r_mcangle_it 1.309 r_angle_refined_deg 1.192 r_mcbond_it 0.693 r_chiral_restr 0.08 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6809 Nucleic Acid Atoms Solvent Atoms 636 Heterogen Atoms 62
Software Software Software Name Purpose MAR345dtb data collection SOLVE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling