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Crystal structure of phosphopentomutase from streptococcus mutans
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 19% PEG 3350, 0.1M Bis-Tris, 0.2M Lithium sulfate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.54 51.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.788 α = 90 b = 63.687 β = 98.85 c = 104.765 γ = 90
Symmetry Space Group P 1 21 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 2006-04-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A 0.97915 NSLS X4A
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 20 97.52 0.067 56682 56682
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 SAD THROUGHOUT 2 20 56682 56682 3011 97.52 0.18218 0.18063 0.1916 0.2108 0.2231 RANDOM 22.585
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] -1.74 0.19 1.89 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.437 r_dihedral_angle_4_deg 16.939 r_dihedral_angle_3_deg 14.276 r_dihedral_angle_1_deg 6.22 r_scangle_it 2.924 r_scbond_it 1.902 r_angle_refined_deg 1.375 r_mcangle_it 1.143 r_angle_other_deg 0.898 r_mcbond_it 0.659
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.437 r_dihedral_angle_4_deg 16.939 r_dihedral_angle_3_deg 14.276 r_dihedral_angle_1_deg 6.22 r_scangle_it 2.924 r_scbond_it 1.902 r_angle_refined_deg 1.375 r_mcangle_it 1.143 r_angle_other_deg 0.898 r_mcbond_it 0.659 r_mcbond_other 0.18 r_chiral_restr 0.085 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6124 Nucleic Acid Atoms Solvent Atoms 315 Heterogen Atoms 10
Software Software Software Name Purpose ADSC data collection SOLVE phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling