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Crystal structure of 5'-nucleotidase from Candida albicans SC5314
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 294 3M Sodium formate, 8% PEG 400, 10% Glycerol, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.24 62.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.946 α = 90 b = 106.74 β = 90 c = 150.656 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 CCD MAR CCD 165 mm 2008-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.9796 APS 31-ID
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 50 99.1 0.096 3.9 6.5 142886 -0.5
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 1.92 96.8 0.85 0.5 5.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 1.9 20 127304 3962 99.39 0.18756 0.1864 0.188 0.22524 0.2261 RANDOM 39.572
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] 0.46 -0.96 0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.293 r_dihedral_angle_4_deg 16.7 r_dihedral_angle_3_deg 15.093 r_scangle_it 8.289 r_dihedral_angle_1_deg 6.47 r_scbond_it 6.018 r_mcangle_it 5.258 r_mcbond_it 3.561 r_angle_refined_deg 1.342 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.293 r_dihedral_angle_4_deg 16.7 r_dihedral_angle_3_deg 15.093 r_scangle_it 8.289 r_dihedral_angle_1_deg 6.47 r_scbond_it 6.018 r_mcangle_it 5.258 r_mcbond_it 3.561 r_angle_refined_deg 1.342 r_nbtor_refined 0.307 r_xyhbond_nbd_refined 0.188 r_symmetry_hbond_refined 0.175 r_nbd_refined 0.168 r_symmetry_vdw_refined 0.141 r_chiral_restr 0.096 r_metal_ion_refined 0.082 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 8787 Nucleic Acid Atoms Solvent Atoms 833 Heterogen Atoms 12
Software Software Software Name Purpose SHELXD phasing REFMAC refinement MAR345 data collection HKL-2000 data reduction HKL-2000 data scaling