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Crystal structure of Helicobacter pylori T4SS protein CagL in a tetragonal crystal form with a helical RGD-motif (6 Mol per ASU)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZCI PDB ENTRY 3ZCI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 277 PROTEIN CONCENTRATION: 10 MG/ML. RESERVOIR: 22.5% PEG 3350, 200 MM KCL. VAPOR DIFFUSION AT 277 K WITH DROP RATIO OF 1 TO 0.5 PROTEIN TO RESERVOIR.
Crystal Properties Matthews coefficient Solvent content 3.5 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 197.122 α = 90 b = 197.122 β = 90 c = 106.808 γ = 90
Symmetry Space Group P 43 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 CCD MARRESEARCH 2011-10-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 3.25 58.34 100 0.22 8.1 7.7 33724 -3 69.97
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 3.25 3.43 100 1.08 2 7.8
Refinement Statistics Diffraction ID Structure Solution Method Starting model 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 PDB ENTRY 3ZCI 3.25 55.965 1.35 33663 1706 99.96 0.2075 0.2051 0.1993 0.2513 0.2483 91.08
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] 4.8458 4.8458 -9.6915
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.222 f_angle_d 0.929 f_chiral_restr 0.053 f_bond_d 0.006 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9370 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms 66
Software Software Software Name Purpose PHENIX refinement XDS data reduction SCALA data scaling PHASER phasing