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Crystal structure of bovine MHD domain of the COPI delta subunit at 2.15 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other FROM INITIAL SAD EXPERIMENT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 293 0.2M Sodium citrate tribasic dehydrate, 20% PEG 3350, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K 2 293 0.4M NaCl, 0.1M Hepes 7.5, 18% PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.092 α = 90 b = 110.333 β = 90 c = 145.794 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 315r 2013-04-28 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD ADSC QUANTUM 315r 2012-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4 2 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.96 50 88 0.055 28.2 2.8 43300
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) 1 1.96 1.99 77.9 0.487 2.7 2.9
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MR-SAD FROM INITIAL SAD EXPERIMENT 2.15 19.89 33217 33217 1546 87.7 0.184 0.182 0.183 0.229 0.2284
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.437 f_angle_d 1.159 f_chiral_restr 0.046 f_bond_d 0.008 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3747 Nucleic Acid Atoms Solvent Atoms 229 Heterogen Atoms 3
Software Software Software Name Purpose DNA data collection PHASER phasing PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling