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Structure of the Minor Pseudopilin XcpW from the Pseudomonas aeruginosa Type II Secretion System
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CI0 PDB entry 3CI0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 0.1M HEPES pH 7.5, 15mM KCl, 7.5% PEG 8000, 0.1M ATP, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 1.89 35.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.718 α = 90 b = 82.911 β = 105.41 c = 57.777 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 103 CCD MARMOSAIC 300 mm CCD 2009-10-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.85 25 99.8 0.043 35.6 5.2 30798 22.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.85 1.88 99.9 0.351 3.6 5.1 1550
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB entry 3CI0 1.85 25 29187 1545 99.64 0.19631 0.1944 0.2304 0.2846 RANDOM 19.937
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] -1.06 -0.07 1.79 -0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.574 r_dihedral_angle_3_deg 14.556 r_dihedral_angle_4_deg 12.648 r_dihedral_angle_1_deg 5.301 r_scangle_it 3.21 r_scbond_it 1.926 r_mcangle_it 1.367 r_angle_refined_deg 1.24 r_mcbond_it 0.728 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.574 r_dihedral_angle_3_deg 14.556 r_dihedral_angle_4_deg 12.648 r_dihedral_angle_1_deg 5.301 r_scangle_it 3.21 r_scbond_it 1.926 r_mcangle_it 1.367 r_angle_refined_deg 1.24 r_mcbond_it 0.728 r_chiral_restr 0.089 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2668 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling