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Crystal structure of T4 Endonuclease VII H43N mutant in complex with heteroduplex DNA containing base mismatches
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1E7L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 293 25%(w/v) PEG 3350, 100 mM Bis-Tris, 220mM Li2SO4 and 5% (w/v) glucose, pH 6.5, VAPOR DIFFUSION, temperature 293K, pH 6.50
Crystal Properties Matthews coefficient Solvent content 3.35 63.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.997 α = 90 b = 64.997 β = 90 c = 153.321 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 MARMOSAIC 300 mm CCD 2006-08-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3 38 84.6 0.048 20.8 2.89 12214 88.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 3 3.11 37.6 0.146 5.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1E7L 3 37.84 12195 12214 1257 84.1 0.246 0.246 0.2582 0.28 0.2921 RANDOM 134.2
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] 38.37 38.37 -76.73
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 20.4 c_mcangle_it 3.84 c_scangle_it 2.6 c_mcbond_it 2.32 c_scbond_it 1.66 c_angle_deg 1.2 c_improper_angle_d 1.04 c_bond_d 0.009 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 20.4 c_mcangle_it 3.84 c_scangle_it 2.6 c_mcbond_it 2.32 c_scbond_it 1.66 c_angle_deg 1.2 c_improper_angle_d 1.04 c_bond_d 0.009 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2540 Nucleic Acid Atoms 1300 Solvent Atoms Heterogen Atoms 2
Software Software Software Name Purpose CNS refinement DENZO data reduction HKL-2000 data scaling PHASER phasing