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Crystal structure of calcium atpase with bound magnesium fluoride and cyclopiazonic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WPG pdb entry 1WPG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.1 284 8% PEG 3350, 21% glycerol, 20mM MgCl2, 0.1mM EGTA, 20 mM MES, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 284K
Crystal Properties Matthews coefficient Solvent content 3.83 67.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 175.383 α = 90 b = 69.875 β = 107.1 c = 143.411 γ = 90
Symmetry Space Group C 1 2 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 ADSC QUANTUM 315 2005-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 12.3.1 ALS 12.3.1
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 2.65 30 99.7 0.063 15 4 48660 2
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 2.65 2.74 100 0.511 4 4855
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 pdb entry 1WPG 2.65 29.1 48429 2421 99.67 0.248 0.246 0.2404 0.287 0.2374 RANDOM 83.564
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] -0.21 -0.24 -0.06 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.344 r_dihedral_angle_3_deg 16.434 r_dihedral_angle_4_deg 16.042 r_dihedral_angle_1_deg 4.417 r_scangle_it 1.55 r_angle_refined_deg 1.28 r_scbond_it 0.886 r_mcangle_it 0.831 r_mcbond_it 0.447 r_nbtor_refined 0.323
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.344 r_dihedral_angle_3_deg 16.434 r_dihedral_angle_4_deg 16.042 r_dihedral_angle_1_deg 4.417 r_scangle_it 1.55 r_angle_refined_deg 1.28 r_scbond_it 0.886 r_mcangle_it 0.831 r_mcbond_it 0.447 r_nbtor_refined 0.323 r_symmetry_hbond_refined 0.263 r_nbd_refined 0.225 r_symmetry_vdw_refined 0.216 r_xyhbond_nbd_refined 0.194 r_metal_ion_refined 0.114 r_chiral_restr 0.076 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7562 Nucleic Acid Atoms Solvent Atoms 75 Heterogen Atoms 32
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction HKL-2000 data scaling