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Crystal structure of the gp32-Dda-dT17 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GPC experimental model PDB 3UPU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291.15 10% (w/v) PEG4000, 0.1 M Hepes pH 7.5, 0.1 M MgCl2.
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25% (w/v) PEG1000; 0.1M Na/K phosphate pH 6.5; 0.2M NaCl.
Crystal Properties Matthews coefficient Solvent content 2.48 50.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.862 α = 90 b = 114.353 β = 90 c = 147.379 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 RAYONIX MX300-HS 2013-11-26 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD RAYONIX MX300-HS 2014-03-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.27046 APS 22-BM 2 SYNCHROTRON APS BEAMLINE 22-ID 1 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) CC (Half) 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 2 4.98 29.56 96.83 0.0714 1 12.5 10.56 8255
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 4.98 5.08 96.83 0.3891 0.77 4.24 8.34
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4.98 29.56 24.36 8232 436 96.9 0.2969 0.2862 0.321 0.3133 0.3405 200.61
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 14.5963 f_angle_d 0.7896 f_chiral_restr 0.0499 f_plane_restr 0.0044 f_bond_d 0.0038
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10565 Nucleic Acid Atoms 400 Solvent Atoms Heterogen Atoms 2
Software Software Software Name Purpose PHENIX refinement HKL-2000 data scaling HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing