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T6SS-linked Rhs repeat protein - Advenella mimigardefordensis VgrG-Rhs core
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Salmonella bongori Rhs core domain structure without N-terminal extension
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 292.15 Protein solution (1 ul, 13.8 mg/ml) was mixed with 1 ul of mother liquor (0.1 M TRIS pH 8.5, 45% PEP426, 400 mM KCl)
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.239 α = 85.69 b = 97.783 β = 89.99 c = 215.006 γ = 76.89
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL PSI PILATUS 6M 2014-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1 3.36 48.48 93.88 0.1586 0.1869 0.09792 0.986 7.5 3.52 70262 53.06
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.36 3.48 95.02 0.5538 0.6516 0.3406 0.862
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 3.36 48.48 1.28 70090 6817 91.2 0.2598 0.2568 0.2568 0.3173 0.3173 65.79
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 11.7969 f_angle_d 0.5682 f_chiral_restr 0.0444 f_plane_restr 0.004 f_bond_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 33470 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement PHENIX refinement Coot model building BUSTER refinement XDS data scaling XDS data reduction PHASER phasing