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Structure of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.1M Bis-Tris HCl, 20% PEG 3350, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2 38.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.683 α = 90 b = 78.692 β = 90 c = 129.527 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 100 CCD ADSC QUANTUM 210 2005-09-30 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.2826,1.2831,1.2782 ALS 8.2.1
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 1.75 50 98.1 0.097 67365 67365
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 1.75 1.81 81.3
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 MAD THROUGHOUT 1.75 50 67365 63794 3398 98.21 0.17221 0.17221 0.17056 0.1823 0.2027 0.214 RANDOM 22.358
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] -0.27 0.38 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.996 r_dihedral_angle_3_deg 12.686 r_dihedral_angle_4_deg 11.901 r_dihedral_angle_1_deg 5.938 r_scangle_it 1.833 r_scbond_it 1.265 r_angle_refined_deg 1.144 r_angle_other_deg 0.802 r_mcangle_it 0.716 r_mcbond_it 0.618
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.996 r_dihedral_angle_3_deg 12.686 r_dihedral_angle_4_deg 11.901 r_dihedral_angle_1_deg 5.938 r_scangle_it 1.833 r_scbond_it 1.265 r_angle_refined_deg 1.144 r_angle_other_deg 0.802 r_mcangle_it 0.716 r_mcbond_it 0.618 r_symmetry_vdw_other 0.286 r_symmetry_vdw_refined 0.214 r_nbd_refined 0.2 r_nbd_other 0.189 r_nbtor_refined 0.17 r_symmetry_hbond_refined 0.161 r_xyhbond_nbd_refined 0.139 r_mcbond_other 0.126 r_nbtor_other 0.081 r_chiral_restr 0.072 r_metal_ion_refined 0.042 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5882 Nucleic Acid Atoms Solvent Atoms 739 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement BOS data collection SCALEPACK data scaling SOLVE phasing