☰ Navigation Tabs
Structural basis for the iron uptake mechanism of Helicobacter pylori ferritin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295 100 mM HEPES, 10% isopropanol, 200 mM sodium citrate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.71 54.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.454 α = 90 b = 128.454 β = 90 c = 165.334 γ = 90
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 2006-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 4A 1.0 PAL/PLS 4A
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 1.5 50 98 0.088 31.3 212629 208376
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 1.5 1.55 86.1 0.472 2.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 1.5 23.61 212639 208365 10451 97.99 0.175 0.174 0.172 0.194 0.1928 RANDOM 16.681
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.338 r_dihedral_angle_3_deg 11.519 r_dihedral_angle_4_deg 8.822 r_dihedral_angle_1_deg 3.789 r_scangle_it 2.095 r_scbond_it 1.391 r_sphericity_free 1.305 r_angle_refined_deg 1.191 r_sphericity_bonded 0.964 r_mcangle_it 0.869
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.338 r_dihedral_angle_3_deg 11.519 r_dihedral_angle_4_deg 8.822 r_dihedral_angle_1_deg 3.789 r_scangle_it 2.095 r_scbond_it 1.391 r_sphericity_free 1.305 r_angle_refined_deg 1.191 r_sphericity_bonded 0.964 r_mcangle_it 0.869 r_rigid_bond_restr 0.801 r_mcbond_it 0.54 r_nbtor_refined 0.296 r_nbd_refined 0.184 r_symmetry_vdw_refined 0.165 r_symmetry_hbond_refined 0.105 r_xyhbond_nbd_refined 0.095 r_chiral_restr 0.072 r_bond_refined_d 0.006 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8436 Nucleic Acid Atoms Solvent Atoms 1053 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing