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Crystal structure of the major pseudopilin from the type 2 secretion system of Vibrio cholerae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 298 22.5% PEG 3350, 0.1M NA ACETATE, 0.04M ZN ACETATE, pH 5.0, vapor diffusion, sitting drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.12 41.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.638 α = 90 b = 64.749 β = 90 c = 65.041 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 MARMOSAIC 325 mm CCD 2007-11-15 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MARMOSAIC 325 mm CCD 2007-11-15 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97946 SSRL BL9-2 2 SYNCHROTRON SSRL BEAMLINE BL9-2 1.28344 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 1,2 1.9 29 97.1 0.087 24.016 6.7 17045 24
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 1.9 1.97 78.8 0.512 2.1 4.1 1373
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT 1.9 27.28 16995 830 96.88 0.18 0.178 0.223 0.2559 RANDOM 20.242
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] -1.04 -0.5 1.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.366 r_dihedral_angle_3_deg 13.395 r_dihedral_angle_4_deg 10.411 r_dihedral_angle_1_deg 5.349 r_scangle_it 2.332 r_scbond_it 1.429 r_angle_refined_deg 1.187 r_mcangle_it 0.835 r_angle_other_deg 0.826 r_mcbond_it 0.444
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.366 r_dihedral_angle_3_deg 13.395 r_dihedral_angle_4_deg 10.411 r_dihedral_angle_1_deg 5.349 r_scangle_it 2.332 r_scbond_it 1.429 r_angle_refined_deg 1.187 r_mcangle_it 0.835 r_angle_other_deg 0.826 r_mcbond_it 0.444 r_mcbond_other 0.115 r_chiral_restr 0.065 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1755 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 5
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction Blu-Ice data collection HKL-2000 data reduction HKL-2000 data scaling