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Intramolecular ester bond-containing repeat domain from Chlamydia trachomatis adhesin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold alphafold prediction
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 291 1.3 M sodium citrate, pH 6.3
Crystal Properties Matthews coefficient Solvent content 2.96 58.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.05 α = 90 b = 91.05 β = 90 c = 88.752 γ = 90
Symmetry Space Group P 43 21 2
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 EIGER2 X 16M 2022-04-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.95372 Australian Synchrotron MX1
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 1.49 45.53 99.7 0.996 11 26.6 60739
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 1.49 1.52 0.294 1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE alphafold prediction 1.5 19.945 60122 895 99.922 0.178 0.1772 0.1724 0.2189 0.2151 30.591
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] 4.782 4.782 -9.563
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.858 r_rigid_bond_restr 11.691 r_dihedral_angle_3_deg 10.088 r_dihedral_angle_2_deg 7.907 r_lrange_it 7.338 r_lrange_other 7.088 r_dihedral_angle_1_deg 6.741 r_scangle_it 5.091 r_scangle_other 5.09 r_mcangle_it 4.604
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.858 r_rigid_bond_restr 11.691 r_dihedral_angle_3_deg 10.088 r_dihedral_angle_2_deg 7.907 r_lrange_it 7.338 r_lrange_other 7.088 r_dihedral_angle_1_deg 6.741 r_scangle_it 5.091 r_scangle_other 5.09 r_mcangle_it 4.604 r_mcangle_other 4.603 r_scbond_it 4.146 r_scbond_other 4.145 r_mcbond_other 3.726 r_mcbond_it 3.725 r_angle_refined_deg 1.006 r_angle_other_deg 0.384 r_symmetry_nbd_refined 0.31 r_symmetry_metal_ion_refined 0.234 r_symmetry_nbd_other 0.201 r_nbd_refined 0.186 r_nbd_other 0.173 r_nbtor_refined 0.163 r_xyhbond_nbd_refined 0.138 r_symmetry_xyhbond_nbd_refined 0.116 r_symmetry_nbtor_other 0.085 r_chiral_restr_other 0.056 r_chiral_restr 0.045 r_gen_planes_refined 0.005 r_bond_refined_d 0.004 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2050 Nucleic Acid Atoms Solvent Atoms 277 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing