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Structure of a psychrophilic CCA-adding enzyme crystallized in the XtalController device
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6QY6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 298 A 10 micoliter drop of CCA-adding enzyme stock solution at 5 mg/ml in 0.05 M HEPES-NaOH pH 7.5, 0.1 M NaCl was incubated in the XtalController instrument. The crystallization was triggered by the gradual addition of crystallant solution (1 M diammonium phosphate, 0.1 M ammonium acetate pH 4.5).
Crystal Properties Matthews coefficient Solvent content 3.74 67.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.53 α = 90 b = 70.53 β = 90 c = 291.48 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 CCD ADSC QUANTUM 315r 2017-04-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.9799 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.28 47.2 0.995 0.086 0.034 1 15.5 6.9 34470 44.72
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.28 2.42 98.5 1.26 0.448 0.76 7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 6QY6 2.28 47.19 1.33 34125 1702 98.56 0.2162 0.214 0.2179 0.2573 0.2576 50.98
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 19.0191 f_angle_d 0.9736 f_chiral_restr 0.0593 f_bond_d 0.0086 f_plane_restr 0.0056
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2989 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms 36
Software Software Software Name Purpose PHENIX refinement XDS data reduction XSCALE data scaling PHENIX phasing