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Crystal structure of an archaeal CNNM, MtCorB, with C-terminal deletion in complex with Mg2+-ATP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7LJ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 0.1 M sodium citrate, pH 5.5; 0.1 M Li2SO4; 0.1 M NaCl; 20 mM MgCl2, 34% PEG400; 10 mM Na2HPO4; 5 mM ATP
Crystal Properties Matthews coefficient Solvent content 4.42 72.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.05 α = 90 b = 118.676 β = 90 c = 177.305 γ = 90
Symmetry Space Group P 21 21 21
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 PILATUS3 6M 2019-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97996 CLSI 08ID-1
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 3.25 50 99.2 0.993 22 11.9 15717 29.92
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 3.25 3.31 96.9 0.43 1 9.1
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 7LJ6 3.26 49.31 1.34 14835 743 71.16 0.2279 0.2259 0.2281 0.2667 0.2668 28.43
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 12.1543 f_angle_d 0.4982 f_chiral_restr 0.0359 f_plane_restr 0.0025 f_bond_d 0.0019
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4786 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 299
Software Software Software Name Purpose HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing PHENIX refinement