☰ Navigation Tabs
Structure of Neisseria meningitidis Major Pillin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HI2 PDB ENTRY 2HI2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 0.1M SODIUM HEPES PH7.5, 45% V/V PEG 600
Crystal Properties Matthews coefficient Solvent content 2.43 49.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.06 α = 90 b = 105.06 β = 90 c = 23.06 γ = 120
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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
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 1.43 23.06 99.9 0.05 19.3 6.8 27504
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 1.43 1.47 99.9 0.6 2.5 4.3
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 2HI2 1.43 23.06 26116 1383 99.9 0.14023 0.1383 0.1371 0.17586 0.1724 RANDOM 20.768
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] 0.13 0.06 0.13 -0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.952 r_dihedral_angle_4_deg 24.741 r_sphericity_free 24.398 r_sphericity_bonded 15.44 r_dihedral_angle_3_deg 10.173 r_dihedral_angle_1_deg 6.992 r_rigid_bond_restr 2.993 r_angle_refined_deg 1.58 r_angle_other_deg 0.859 r_chiral_restr 0.094
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.952 r_dihedral_angle_4_deg 24.741 r_sphericity_free 24.398 r_sphericity_bonded 15.44 r_dihedral_angle_3_deg 10.173 r_dihedral_angle_1_deg 6.992 r_rigid_bond_restr 2.993 r_angle_refined_deg 1.58 r_angle_other_deg 0.859 r_chiral_restr 0.094 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_gen_planes_other 0.004 r_bond_other_d 0.001 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1044 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing