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Structure of a MACPF/perforin-like protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 20% PEG8000, 0.1M MES pH6.0, 0.2M Calcium Acetate, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.89 57.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.439 α = 90 b = 154.507 β = 90 c = 43.917 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV 2007-02-04 M SINGLE WAVELENGTH 2 1 CCD ADSC QUANTUM 4 2007-04-10
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ELLIOTT GX-18 1.5418 2 SYNCHROTRON APS BEAMLINE 17-ID 1.000 APS 17-ID
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 2 100 96.9 0.047 15.8 3.9 44074
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 2.07 79.1 0.426 2.1 2.4 3518
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIRAS THROUGHOUT 2 41.21 44064 44064 2245 96.67 0.182 0.18 0.204 0.2249 RANDOM 26.066
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] -0.16 0.57 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.393 r_dihedral_angle_4_deg 16.241 r_dihedral_angle_3_deg 12.923 r_dihedral_angle_1_deg 4.961 r_scangle_it 3.703 r_scbond_it 2.444 r_mcangle_it 1.23 r_angle_refined_deg 0.961 r_mcbond_it 0.582 r_nbtor_refined 0.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.393 r_dihedral_angle_4_deg 16.241 r_dihedral_angle_3_deg 12.923 r_dihedral_angle_1_deg 4.961 r_scangle_it 3.703 r_scbond_it 2.444 r_mcangle_it 1.23 r_angle_refined_deg 0.961 r_mcbond_it 0.582 r_nbtor_refined 0.296 r_nbd_refined 0.172 r_symmetry_vdw_refined 0.156 r_xyhbond_nbd_refined 0.101 r_metal_ion_refined 0.099 r_symmetry_hbond_refined 0.082 r_symmetry_metal_ion_refined 0.075 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3815 Nucleic Acid Atoms Solvent Atoms 356 Heterogen Atoms 2
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing SOLOMON phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection