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Crystal structure of the major pseudopilin from the type 2 secretion system of enterohaemorrhagic Escherichia coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FU1 PDB entry 3FU1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9.5 298 1.0M Na citrate, 0.1M CHES pH 9.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.02 39.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 26.12 α = 106.94 b = 36.83 β = 99.05 c = 61.27 γ = 90.17
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 MARMOSAIC 325 mm CCD 2008-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97945 SSRL BL9-2
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 1.78 35.01 94.2 0.064 41532 39113 -3 23.85
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 1.78 1.82 88.8 0.545 1.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 3FU1 1.78 35.01 20713 19947 999 96.3 0.17 0.17 0.168 0.1846 0.222 0.2327 RANDOM 12.079
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] -0.83 0.44 -0.04 0.63 -0.95 -0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.815 r_dihedral_angle_4_deg 21.463 r_dihedral_angle_3_deg 12.22 r_dihedral_angle_1_deg 5.72 r_scangle_it 2.362 r_scbond_it 1.516 r_angle_refined_deg 1.227 r_angle_other_deg 0.85 r_mcangle_it 0.802 r_mcbond_it 0.413
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.815 r_dihedral_angle_4_deg 21.463 r_dihedral_angle_3_deg 12.22 r_dihedral_angle_1_deg 5.72 r_scangle_it 2.362 r_scbond_it 1.516 r_angle_refined_deg 1.227 r_angle_other_deg 0.85 r_mcangle_it 0.802 r_mcbond_it 0.413 r_mcbond_other 0.11 r_chiral_restr 0.068 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1852 Nucleic Acid Atoms Solvent Atoms 266 Heterogen Atoms 37
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection XDS data reduction