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Crystal structure of Thermotoga maritima endonuclease IV in the presence of zinc
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QTW PDB ENTRY 1QTW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 9 0.1 M SODIUM CHLORIDE, 0.1 M BICINE PH 9.0, 20%(V/V) POLYETHYLENE GLYCOL MONOMETHYL ETHER 550, 10 MM ZINC SULFATE
Crystal Properties Matthews coefficient Solvent content 2.39 46.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.37 α = 90 b = 123.37 β = 90 c = 35.3 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 MARRESEARCH MX-300 2009-11-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM APS 22-BM
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 2.3 35.61 99.4 0.06 4.5 4.2 13865 2 17.52
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 2.3 2.42 99.9 0.18 2.1 4.1
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 1QTW 2.3 35.614 1.36 13849 679 98.92 0.1488 0.1461 0.1431 0.2003 0.1982 18.61
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] 0.4224 0.4224 -0.8448
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.912 f_angle_d 1.103 f_chiral_restr 0.078 f_bond_d 0.009 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2278 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 3
Software Software Software Name Purpose PHENIX refinement MOSFLM data reduction SCALA data scaling PHASER phasing