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Structure of ComB10 of the Com Type IV secretion system of Helicobacter pylori
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 8-14% (W/V) POLYETHYLENE GLYCOL (PEG) 8000, 100MM SODIUM CACODYLATE PH6.0 AND 200 MM MAGNESIUM ACETATE, pH 6.00
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.735 α = 90 b = 139.411 β = 90 c = 168.442 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 2004-03-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 3 20 97.4 0.09 11 3.7 32829 2
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 3 3.16 98 0.61 2.3 3.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION OTHER THROUGHOUT 3 20 31301 1671 98.3 0.259 0.257 0.2915 0.293 0.3154 RANDOM 47
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] 1.18 -3.92 2.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.851 r_dihedral_angle_3_deg 20.276 r_dihedral_angle_4_deg 18.25 r_dihedral_angle_1_deg 7.308 r_angle_refined_deg 1.274 r_scangle_it 1.177 r_scbond_it 0.721 r_mcangle_it 0.709 r_mcbond_it 0.408 r_symmetry_vdw_refined 0.323
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.851 r_dihedral_angle_3_deg 20.276 r_dihedral_angle_4_deg 18.25 r_dihedral_angle_1_deg 7.308 r_angle_refined_deg 1.274 r_scangle_it 1.177 r_scbond_it 0.721 r_mcangle_it 0.709 r_mcbond_it 0.408 r_symmetry_vdw_refined 0.323 r_nbtor_refined 0.317 r_nbd_refined 0.227 r_symmetry_hbond_refined 0.222 r_xyhbond_nbd_refined 0.136 r_chiral_restr 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other 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 8759 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling SHARP phasing