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Complex of UNG2 and a small Molecule synthetic Inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AK7 pdb entry 1AK7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 298 44.2 mg/ml protein sample, 16.8 mM inhibitor, 5% DMSO, 0.22 M potassium Thiocyanate, 20% w/v PEG 3350, 100mM Tris HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.05 40.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.209 α = 90 b = 69.03 β = 90 c = 70.318 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 4 mirrors 2005-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 1.1 NSLS X6A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.3 49.3 98 0.057 0.057 27.6 4.9 51576 51576 11.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.3 1.35 92.4 0.491 0.49 2.65 4.2
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 1AK7 1.3 49.27 48833 2637 98.06 0.18342 0.18217 0.1838 0.20641 0.208 RANDOM 12.561
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] -0.32 0.21 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.73 r_dihedral_angle_4_deg 15.77 r_dihedral_angle_3_deg 11.119 r_dihedral_angle_1_deg 5.637 r_scangle_it 2.477 r_scbond_it 1.714 r_angle_refined_deg 1.261 r_mcangle_it 1.057 r_mcbond_it 0.641 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.73 r_dihedral_angle_4_deg 15.77 r_dihedral_angle_3_deg 11.119 r_dihedral_angle_1_deg 5.637 r_scangle_it 2.477 r_scbond_it 1.714 r_angle_refined_deg 1.261 r_mcangle_it 1.057 r_mcbond_it 0.641 r_nbtor_refined 0.314 r_nbd_refined 0.194 r_symmetry_vdw_refined 0.187 r_symmetry_hbond_refined 0.118 r_xyhbond_nbd_refined 0.104 r_chiral_restr 0.083 r_bond_refined_d 0.007 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_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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1808 Nucleic Acid Atoms Solvent Atoms 315 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing