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Crystal Structure of ADP-Glucose Pyrophosphorylase from Agrobacterium tumefaciens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 298 1.5M lithium sulfate, pH 7.5, vapor diffusion, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.96 58.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.38 α = 90 b = 93.793 β = 90 c = 140.293 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 2004-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.979 SSRL BL9-1
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 2.1 79 99.9 0.069 33214 33214
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 (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 MOLECULAR REPLACEMENT THROUGHOUT 2.1 46.9 33214 33213 3336 99.9 0.225 0.225 0.221 0.228 0.267 0.2748 RANDOM 29.297
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] 0.82 1.67 -2.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.856 r_scangle_it 3.082 r_scbond_it 1.98 r_angle_refined_deg 1.487 r_mcangle_it 1.299 r_angle_other_deg 0.922 r_mcbond_it 0.721 r_symmetry_vdw_other 0.31 r_nbd_other 0.239 r_nbd_refined 0.214
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.856 r_scangle_it 3.082 r_scbond_it 1.98 r_angle_refined_deg 1.487 r_mcangle_it 1.299 r_angle_other_deg 0.922 r_mcbond_it 0.721 r_symmetry_vdw_other 0.31 r_nbd_other 0.239 r_nbd_refined 0.214 r_xyhbond_nbd_refined 0.213 r_symmetry_hbond_refined 0.154 r_chiral_restr 0.145 r_symmetry_vdw_refined 0.101 r_nbtor_other 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2975 Nucleic Acid Atoms Solvent Atoms 238 Heterogen Atoms 15
Software Software Software Name Purpose MOSFLM data reduction DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction