☰ Navigation Tabs
Crystal Structure Of a purine nucleoside phosphorylase (PSI-NYSGRC-029736) from Agrobacterium vitis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 298 Protein (20 mM Hepes, pH 7.5, 150 mM NaCl, 10% glycerol; Reservoir (0.16M MgCl2, 0.08M Tris-HCl pH 8.5, 24% PEG 4000, 20% glycerol - MCSG1 #22); Cryoprotection (None)
Crystal Properties Matthews coefficient Solvent content 2.09 41.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.881 α = 90 b = 97.881 β = 90 c = 46.356 γ = 120
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 RAYONIX MX225HE MIRRORS 2013-07-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97931 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 2.4 50 99.5 0.093 11.2 11 19502 -3 48.4
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 2.4 2.44 100 0.942 3.1 10.3 997
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 2.4 20 10039 519 99.42 0.1816 0.1791 0.1794 0.2241 0.2243 RANDOM 59.631
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] -0.42 -0.21 -0.42 1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.309 r_dihedral_angle_4_deg 17.888 r_dihedral_angle_3_deg 14.803 r_dihedral_angle_1_deg 5.931 r_mcangle_it 3.036 r_mcbond_it 1.929 r_mcbond_other 1.913 r_angle_refined_deg 1.361 r_angle_other_deg 0.744 r_chiral_restr 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.309 r_dihedral_angle_4_deg 17.888 r_dihedral_angle_3_deg 14.803 r_dihedral_angle_1_deg 5.931 r_mcangle_it 3.036 r_mcbond_it 1.929 r_mcbond_other 1.913 r_angle_refined_deg 1.361 r_angle_other_deg 0.744 r_chiral_restr 0.07 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1806 Nucleic Acid Atoms Solvent Atoms 18 Heterogen Atoms 10
Software Software Software Name Purpose HKL-3000 data reduction PDB_EXTRACT data extraction SCALEPACK data scaling REFMAC refinement