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Crystal structure of a pyrimidine degrading enzyme from Drosophila melanogaster
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.2 PEG 3350,PHOSPHATE/CITRATE PH 4.2, NACL
Crystal Properties Matthews coefficient Solvent content 2.56 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.04 α = 90 b = 197.88 β = 90 c = 97.96 γ = 90
Symmetry Space Group P 21 21 2
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 MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 2.8 60 95.6 0.12 9.2 2.7 43922 2
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 2.8 2.95 94.4 0.46 2.3 2.8
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 MOLECULAR REPLACEMENT THROUGHOUT 2.8 35 41665 2237 94.8 0.217 0.215 0.2177 0.255 0.2554 RANDOM 34.63
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] 0.31 -0.95 0.64
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.681 r_dihedral_angle_4_deg 20.906 r_dihedral_angle_3_deg 19.151 r_dihedral_angle_1_deg 6.285 r_scangle_it 1.587 r_angle_refined_deg 1.215 r_scbond_it 0.907 r_mcangle_it 0.787 r_mcbond_it 0.455 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.681 r_dihedral_angle_4_deg 20.906 r_dihedral_angle_3_deg 19.151 r_dihedral_angle_1_deg 6.285 r_scangle_it 1.587 r_angle_refined_deg 1.215 r_scbond_it 0.907 r_mcangle_it 0.787 r_mcbond_it 0.455 r_nbtor_refined 0.307 r_symmetry_vdw_refined 0.253 r_symmetry_hbond_refined 0.204 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.086 r_bond_refined_d 0.009 r_gen_planes_refined 0.003 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_refined 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11857 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing