☰ Navigation Tabs
A complex of cagX and cagY components of Helicobacter pylori type IV secretion system
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 295 0.2M Calcium acetate, 0.1M Bis-tris pH 5.5 and 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 3.15 60.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.059 α = 90 b = 196.123 β = 90 c = 200.128 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS PILATUS 6M 2018-11-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.9689 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 2.7 49.08 100 0.99 5.9 13.1 30397
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.83 99.9 0.241
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.7 49.079 30363 1515 99.872 0.254 0.2516 0.2515 0.298 0.2982 109.063
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] -2.086 -3.732 5.818
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.941 r_dihedral_angle_4_deg 20.668 r_lrange_it 19.224 r_scangle_it 14.038 r_dihedral_angle_3_deg 13.643 r_mcangle_it 12.841 r_scbond_it 9.315 r_mcbond_it 8.484 r_dihedral_angle_1_deg 6.792 r_angle_refined_deg 1.247
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.941 r_dihedral_angle_4_deg 20.668 r_lrange_it 19.224 r_scangle_it 14.038 r_dihedral_angle_3_deg 13.643 r_mcangle_it 12.841 r_scbond_it 9.315 r_mcbond_it 8.484 r_dihedral_angle_1_deg 6.792 r_angle_refined_deg 1.247 r_symmetry_nbd_refined 0.299 r_nbtor_refined 0.297 r_symmetry_metal_ion_refined 0.235 r_nbd_refined 0.199 r_ncsr_local_group_1 0.142 r_symmetry_xyhbond_nbd_refined 0.126 r_ncsr_local_group_2 0.108 r_chiral_restr 0.092 r_xyhbond_nbd_refined 0.084 r_bond_refined_d 0.006 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6030 Nucleic Acid Atoms Solvent Atoms 1 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling CRANK2 phasing MOLREP phasing DM phasing Coot model building BUSTER refinement ISOLDE refinement