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HtaA CR1 domain from Corynebacterium diphtheriae
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold AF-Q6NIZ1-F1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 298 0.2 M lithium sulfate, 0.1 M sodium acetate pH 4.5, 50% PEG 400
Crystal Properties Matthews coefficient Solvent content 4.28 71.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.703 α = 90 b = 209.062 β = 90.028 c = 153.846 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 90 PIXEL DECTRIS PILATUS3 S 6M 2023-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.115790 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.88 19.94 92.9 0.103 0.114 0.0484 0.997 9.59 5.36 147873
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.883 2.087 71 1.0281 1.1268 0.4584 0.474 1.8 5.95 7394
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.88 19.94 1.34 147859 2060 54.59 0.2201 0.2165 0.2192 0.2482 0.2568 37.37
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.498 f_angle_d 1.2474 f_chiral_restr 0.0686 f_plane_restr 0.0097 f_bond_d 0.0085
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13210 Nucleic Acid Atoms Solvent Atoms 387 Heterogen Atoms 478
Software Software Software Name Purpose autoPROC data processing XDS data reduction pointless data scaling Aimless data scaling STARANISO data scaling PHENIX refinement PHASER phasing