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Type IV-like pilin TTHA1219 from Thermus thermophilus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5G23 PDB ENTRY 5G23
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.01M ZINC CHLORIDE, 0.1M SODIUM ACETATE PH 5 AND 20% (W/V) PEG 6000
Crystal Properties Matthews coefficient Solvent content 2.2 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.83 α = 90 b = 32.17 β = 115.51 c = 108.12 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 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 2.3 57.77 99.8 0.11 14.3 8.1 16586 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 2.3 2.36 99.2 0.82 2.6 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 5G23 2.3 97.58 15747 838 99.81 0.19266 0.1901 0.1957 0.24034 0.2403 RANDOM 44.982
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] -0.09 0.06 -0.42 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.819 r_dihedral_angle_4_deg 18.027 r_dihedral_angle_3_deg 15.962 r_dihedral_angle_1_deg 7.387 r_mcangle_it 3.006 r_scbond_it 2.355 r_angle_refined_deg 1.877 r_mcbond_it 1.87 r_mcbond_other 1.867 r_angle_other_deg 1.562
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.819 r_dihedral_angle_4_deg 18.027 r_dihedral_angle_3_deg 15.962 r_dihedral_angle_1_deg 7.387 r_mcangle_it 3.006 r_scbond_it 2.355 r_angle_refined_deg 1.877 r_mcbond_it 1.87 r_mcbond_other 1.867 r_angle_other_deg 1.562 r_chiral_restr 0.104 r_bond_refined_d 0.021 r_gen_planes_refined 0.013 r_bond_other_d 0.01 r_gen_planes_other 0.007 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 2937 Nucleic Acid Atoms Solvent Atoms 79 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing