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Epstein Barr Virus dUTPase in complex with a,b-imino dUTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BSY PDB ENTRY 2BSY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 100 MM BIS-TRIS/HCL PH 6.5, 3 M NACL
Crystal Properties Matthews coefficient Solvent content 4.07 69.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.585 α = 90 b = 146.585 β = 90 c = 77.145 γ = 120
Symmetry Space Group P 62 2 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 2004-10-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
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 2.7 30 100 0.09 7.1 7.1 13920 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 2.7 2.85 100 0.31 2.4 7.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 2BSY 2.7 20 13164 691 100 0.193 0.19 0.1888 0.245 0.244 RANDOM 28.45
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] -0.01 -0.01 -0.01 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.444 r_dihedral_angle_3_deg 20.898 r_dihedral_angle_4_deg 20.432 r_dihedral_angle_1_deg 6.638 r_scangle_it 4.889 r_scbond_it 3.111 r_angle_refined_deg 2.306 r_mcangle_it 2.132 r_mcbond_it 1.188 r_nbtor_refined 0.329
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.444 r_dihedral_angle_3_deg 20.898 r_dihedral_angle_4_deg 20.432 r_dihedral_angle_1_deg 6.638 r_scangle_it 4.889 r_scbond_it 3.111 r_angle_refined_deg 2.306 r_mcangle_it 2.132 r_mcbond_it 1.188 r_nbtor_refined 0.329 r_symmetry_vdw_refined 0.265 r_nbd_refined 0.249 r_symmetry_hbond_refined 0.229 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.136 r_bond_refined_d 0.024 r_gen_planes_refined 0.008 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 2014 Nucleic Acid Atoms Solvent Atoms 57 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing