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N-acetyl-B-D-glucosaminidase (GCNA) from Streptococcus gordonii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 100mM HEPES, 2M ammonium sulphate, 0.5 %(v/v) PEG400, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.92 68.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.895 α = 90 b = 124.509 β = 90 c = 148.536 γ = 90
Symmetry Space Group I 2 2 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 CCD MARRESEARCH 2006-04-21 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97928, 0.97945, 0.94929 APS 23-ID-D
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 1.85 39.97 99.64 0.1 13.4 7.4 97867 97524 3 3 26.7
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 1.85 1.9 95.58 0.65 3.24 6.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.85 39.97 97400 92648 4876 99.64 0.21605 0.21506 0.2011 0.2347 0.2189 RANDOM 30.89
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] -2.84 -1.89 4.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.745 r_dihedral_angle_4_deg 15.861 r_dihedral_angle_3_deg 13.351 r_dihedral_angle_1_deg 7.303 r_scangle_it 6.158 r_scbond_it 4.686 r_mcangle_it 2.986 r_mcbond_it 2.525 r_angle_refined_deg 1.224 r_angle_other_deg 0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.745 r_dihedral_angle_4_deg 15.861 r_dihedral_angle_3_deg 13.351 r_dihedral_angle_1_deg 7.303 r_scangle_it 6.158 r_scbond_it 4.686 r_mcangle_it 2.986 r_mcbond_it 2.525 r_angle_refined_deg 1.224 r_angle_other_deg 0.77 r_mcbond_other 0.626 r_symmetry_vdw_other 0.258 r_symmetry_vdw_refined 0.219 r_nbd_refined 0.21 r_nbtor_refined 0.187 r_nbd_other 0.174 r_symmetry_hbond_refined 0.155 r_xyhbond_nbd_refined 0.126 r_nbtor_other 0.082 r_chiral_restr 0.079 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4984 Nucleic Acid Atoms Solvent Atoms 217 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling SOLVE phasing