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Structure of the E2 beryllium fluoride complex of the SERCA Ca2+-ATPase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XP5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 292 18% PEG6000, 50mM MgSO4, 10% glycerol, 4% DMSO, pH 6.8, vapor diffusion, hanging drop, temperature 292K
Crystal Properties Matthews coefficient Solvent content 3.45 64.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.6 α = 90 b = 114.6 β = 90 c = 229.3 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 MARMOSAIC 225 mm CCD Pt coated Si mirror 2007-03-16 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.873 ESRF ID23-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.65 30 99.2 0.274 0.274 9.84 12.1 45166 44824 -3 42.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.65 2.7 99.8 1.246 1.246 2.2 12 2407
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1xp5 2.65 29.351 2 2 44754 1345 99.28 0.216 0.214 0.2147 0.271 0.2704 random 58.8
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 18.665 f_angle_d 1.09 f_chiral_restr 0.074 f_bond_d 0.007 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7671 Nucleic Acid Atoms Solvent Atoms 65 Heterogen Atoms 7
Software Software Software Name Purpose XSCALE data scaling PHASER phasing RESOLVE phasing PHENIX refinement PDB_EXTRACT data extraction DNA data collection XDS data reduction