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Pilus-presented adhesin, Spy0125 (Cpa), Cys426Ala mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XIC PDB ENTRY 2XIC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.75 38 - 40 % PEG 4000, 200 MM SODIUM ACETATE AND 100 MM TRI - SODIUM CITRATE PH 5.6 REMARK 280 MM MES PH 6.0 - 6.5
Crystal Properties Matthews coefficient Solvent content 2.31 46.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.96 α = 90 b = 116.86 β = 90 c = 176.85 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 ADSC CCD 2010-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03
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 2.8 70.51 99.9 0.11 13 7.8 24374
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 2.8 2.95 100 0.5 4.3 8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2XIC 2.8 70.61 23078 1240 99.88 0.21389 0.21102 0.215 0.26815 0.2667 RANDOM 66.313
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] 7.97 -2.53 -5.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.404 r_dihedral_angle_3_deg 16.768 r_dihedral_angle_4_deg 13.889 r_dihedral_angle_1_deg 6.689 r_mcangle_it 2.771 r_mcbond_it 1.655 r_mcbond_other 1.654 r_scbond_it 1.539 r_angle_refined_deg 1.326 r_angle_other_deg 0.845
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.404 r_dihedral_angle_3_deg 16.768 r_dihedral_angle_4_deg 13.889 r_dihedral_angle_1_deg 6.689 r_mcangle_it 2.771 r_mcbond_it 1.655 r_mcbond_other 1.654 r_scbond_it 1.539 r_angle_refined_deg 1.326 r_angle_other_deg 0.845 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.003 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6708 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing