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Structure of 3-keto-L-gulonate 6-phosphate decarboxylase with bound L-gulonaet 6-phosphate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 7 298 16% MePEG 2000, 50 mM BTP pH 7.0, 5 mM MgCl2, microbatch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.13 41.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.24 α = 90 b = 41.775 β = 97.15 c = 90.958 γ = 90
Symmetry Space Group C 1 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 ADSC QUANTUM 4 2003-04-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 1.0247 APS 14-BM-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.202 100 92.4 29.6 131568 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.202 1.24 69.7 4.5
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 MOLECULAR REPLACEMENT THROUGHOUT 1.202 91.29 131568 124961 6607 92.02 0.1418 0.1408 0.1412 0.1605 0.1599 RANDOM 14.279
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] -0.67 0.22 1.01 -0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.906 r_scangle_it 4.279 r_sphericity_free 3.791 r_sphericity_bonded 3.617 r_scbond_it 2.931 r_mcangle_it 2.452 r_angle_other_deg 2.07 r_mcbond_it 1.646 r_angle_refined_deg 1.511 r_rigid_bond_restr 1.401
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.906 r_scangle_it 4.279 r_sphericity_free 3.791 r_sphericity_bonded 3.617 r_scbond_it 2.931 r_mcangle_it 2.452 r_angle_other_deg 2.07 r_mcbond_it 1.646 r_angle_refined_deg 1.511 r_rigid_bond_restr 1.401 r_symmetry_vdw_other 0.293 r_nbd_other 0.25 r_nbd_refined 0.233 r_xyhbond_nbd_refined 0.187 r_symmetry_vdw_refined 0.165 r_symmetry_hbond_refined 0.164 r_chiral_restr 0.12 r_nbtor_other 0.089 r_bond_refined_d 0.012 r_gen_planes_other 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_xyhbond_nbd_other r_symmetry_hbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3297 Nucleic Acid Atoms Solvent Atoms 561 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement DENZO data reduction CNS phasing