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CRYSTAL STRUCTURE OF GLVA FROM BACILLUS SUBTILIS, A METAL-REQUIRING, NAD-DEPENDENT 6-PHOSPHO-ALPHA-GLUCOSIDASE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other SAD, AUTO BUILT MODEL FROM RESOLVE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 295 0.2M MgCl2, 0.1M Tris-Cl, pH8.0, 28% PEG4000, 10% (v/v)glycerol, pH 8.00, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.8 58.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.604 α = 90 b = 102.017 β = 90 c = 144.748 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 77.4 CCD MARRESEARCH 2002-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 5ID-B 0.979 APS 5ID-B
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 2.05 30 99.8 0.102 11.3 7.5 275160 38535
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 2.05 2.1 99.9 0.569 7.5 2536
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 (All) 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 AUTO-BUILT MODEL FROM RESOLVE 2.05 30.02 33021 33021 3655 95 0.197 0.197 0.195 0.2078 0.221 0.2158 RANDOM 28.91
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] -2.73 3.16 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.834 r_scangle_it 3.576 r_scbond_it 2.194 r_mcangle_it 1.406 r_angle_refined_deg 1.332 r_angle_other_deg 0.832 r_mcbond_it 0.743 r_symmetry_hbond_refined 0.421 r_symmetry_vdw_other 0.285 r_nbd_other 0.239
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.834 r_scangle_it 3.576 r_scbond_it 2.194 r_mcangle_it 1.406 r_angle_refined_deg 1.332 r_angle_other_deg 0.832 r_mcbond_it 0.743 r_symmetry_hbond_refined 0.421 r_symmetry_vdw_other 0.285 r_nbd_other 0.239 r_symmetry_vdw_refined 0.234 r_nbd_refined 0.215 r_xyhbond_nbd_refined 0.185 r_nbtor_other 0.086 r_chiral_restr 0.083 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_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 3449 Nucleic Acid Atoms Solvent Atoms 162 Heterogen Atoms 61
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing REFMAC refinement