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X-ray crystal structure of a DCUN1 domain-containing protein from Galdieria sulfuraria
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 293 30% PEG 1500, 100 mM sodium acetate pH 5.0, 150 mM MgCl2, 50 mM NaCl, 5 mM HEPES pH 7.0, 0.3 mM TCEP, VAPOR DIFFUSION, SITTING DROP, temperature 293K 2 VAPOR DIFFUSION, SITTING DROP 5 293 27% PEG 1500, 100 mM sodium acetate pH 5.0, 150 mM LiCl2, 50 mM NaCl, 5 mM HEPES pH 7.0, 0.3 mM TCEP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.743 α = 90 b = 52.422 β = 111.17 c = 49.113 γ = 90
Symmetry Space Group P 1 21 1
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 2009-10-12 SINGLE WAVELENGTH 2 2 x-ray 100 CCD MARMOSAIC 300 mm CCD 2009-10-18 MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-D .97625 APS 21-ID-D 2 SYNCHROTRON APS BEAMLINE 23-ID-D 0.96426, 0.97949, 0.97965, 0.99522 APS 23-ID-D
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 1.3 50 98.5 0.04 16 4 42886 42243
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 1.3 1.32 87.2 0.388 2.6 3 1849
Refinement Statistics Diffraction ID Structure Solution Method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD, MR 1.3 20.984 1.35 42820 42161 2111 98.46 0.156 0.156 0.155 0.178 0.1861 random 20.012
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] -1.285 2.593 -2.06 3.345
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 17.426 f_angle_d 1.566 f_chiral_restr 0.101 f_bond_d 0.018 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1525 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 13
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing SHARP phasing DM phasing PHENIX refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data scaling