☰ Navigation Tabs
The T6 backbone pilin of serotype M6 Streptococcus pyogenes has a modular three-domain structure decorated with variable loops and extensions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4K8W PDB Entry 4K8W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 291 2.2 M NaKPO4 pH 6.4, 2 % PEG 400, 0.1 M imidazole, 20 mM Imidazole
Crystal Properties Matthews coefficient Solvent content 2.52 51.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.24 α = 90 b = 104.24 β = 90 c = 84.22 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 110 CCD ADSC QUANTUM 210r 2013-03-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.9537 Australian Synchrotron MX1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.9 24.48 89.1 0.152 0.036 16.6 18.2 36565 13.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.94 57.9 0.939 0.229 3.8 17.4 1592
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 4K8W 1.9 50 36383 1834 88.62 0.2111 0.209 0.2161 0.2499 0.2552 RANDOM 22.631
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] 0.5 0.25 0.5 -1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.339 r_dihedral_angle_4_deg 15.819 r_dihedral_angle_3_deg 11.817 r_dihedral_angle_1_deg 6.133 r_mcangle_it 1.831 r_angle_refined_deg 1.256 r_mcbond_it 1.12 r_mcbond_other 1.115 r_angle_other_deg 0.706 r_chiral_restr 0.074
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.339 r_dihedral_angle_4_deg 15.819 r_dihedral_angle_3_deg 11.817 r_dihedral_angle_1_deg 6.133 r_mcangle_it 1.831 r_angle_refined_deg 1.256 r_mcbond_it 1.12 r_mcbond_other 1.115 r_angle_other_deg 0.706 r_chiral_restr 0.074 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3472 Nucleic Acid Atoms Solvent Atoms 441 Heterogen Atoms 4
Software Software Software Name Purpose XDS data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XSCALE data reduction Aimless data scaling