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Structure of mammalian NEIL2 from Monodelphis domestica
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 40 mM hepes pH 7.5, 50 mM sodium succinate, 1% propylene glycol, 1 mM TCEP, 14% PEG 3350 and cryoprotected with increase to 20% PEG 3350 and 30% glucose
Crystal Properties Matthews coefficient Solvent content 2.6 52.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.887 α = 90 b = 67.887 β = 90 c = 149.13 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 mirrors 2014-07-03 M SINGLE WAVELENGTH 3 1 x-ray 100 CCD MARMOSAIC 300 mm CCD mirrors 2015-02-11 M SINGLE WAVELENGTH 4 1 x-ray 100 CCD MARMOSAIC 300 mm CCD mirrors 2015-10-16 M SINGLE WAVELENGTH 6 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M mirrors 2016-06-30 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARMOSAIC 300 mm CCD mirrors 2015-02-11 M SINGLE WAVELENGTH 5 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M mirrors 2016-06-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.281 APS 23-ID-B 3 SYNCHROTRON APS BEAMLINE 23-ID-B 1.771 APS 23-ID-B 4 SYNCHROTRON APS BEAMLINE 23-ID-B 0.9794 APS 23-ID-B 6 SYNCHROTRON APS BEAMLINE 23-ID-D 0.979 APS 23-ID-D 2 SYNCHROTRON APS BEAMLINE 23-ID-B 1.039 APS 23-ID-B 5 SYNCHROTRON APS BEAMLINE 23-ID-D 1.033 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 4 2.539 59.154 99.9 0.124 0.13 0.039 0.996 18.8 11 50608
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 4 2.54 2.68 99.9 3.394 3.761 1.213 0.468 0.9 9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MIRAS THROUGHOUT 2.54 37.96 1.92 50608 4926 99.84 0.2527 0.2503 0.2553 0.2749 0.2772 98.1896
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]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3797 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms 2
Software Software Software Name Purpose PHENIX refinement XDS data reduction Aimless data scaling SHARP phasing SOLOMON phasing PDB_EXTRACT data extraction