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Crystal structure of the CofA Type IV pilin subunit from enterotoxigenic E. coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OQV PDB ENTRY 1OQV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 2.5 M ammonium sulfate, 4.6 uM dodecyltrimethylammonium chloride, 100 mM Tris-HCl, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.66 25.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.5 α = 95.75 b = 34.15 β = 97.38 c = 64.23 γ = 94
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 ADSC QUANTUM 210 2007-04-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C NSLS X26C
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 1.26 63.2 96 0.067 33.2 4.2 66018 66018 3.9 4.3
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 1.26 1.31 91.8 0.501 3.7 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 1OQV 1.26 25 3.9 63360 60141 3219 96 0.14151 0.13937 0.18065 0.1871 RANDOM 10.774
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] 0.87 0.01 -0.14 -0.56 0.16 -0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.454 r_dihedral_angle_3_deg 13.881 r_dihedral_angle_4_deg 13.597 r_scangle_it 7.259 r_dihedral_angle_1_deg 6.438 r_angle_other_deg 5.63 r_scbond_it 5.238 r_mcangle_it 3.654 r_mcbond_it 2.581 r_rigid_bond_restr 2.487
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.454 r_dihedral_angle_3_deg 13.881 r_dihedral_angle_4_deg 13.597 r_scangle_it 7.259 r_dihedral_angle_1_deg 6.438 r_angle_other_deg 5.63 r_scbond_it 5.238 r_mcangle_it 3.654 r_mcbond_it 2.581 r_rigid_bond_restr 2.487 r_angle_refined_deg 2.175 r_mcbond_other 1.876 r_chiral_restr 0.15 r_bond_refined_d 0.03 r_gen_planes_refined 0.011 r_gen_planes_other 0.007 r_bond_other_d 0.005 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2619 Nucleic Acid Atoms Solvent Atoms 385 Heterogen Atoms 13
Software Software Software Name Purpose CBASS data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling