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Crystal structure of M. smegmatis GMP reductase in complex with GMP and GTP.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other NA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.7 291 0.03 M Magnesium chloride
0.03 M Calcium chloride
20% (v/v) Ethylene glycol
8.5% (v/v) PEG 8000
0.1 M Tris/BICINE, pH 8.7
Crystal Properties Matthews coefficient Solvent content 3.13 60.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.08 α = 90 b = 145.93 β = 95.929 c = 146.32 γ = 90
Symmetry Space Group P 1 21 1
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 S 6M 2024-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
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 2.3 112.5 98.42 0.1591 0.1881 0.09933 0.996 5.03 3.5 410206 57.68
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 2.3 2.33 87.28 4.465 5.277 2.785 0.087 0.22 3.5
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 2.3 112.48 1.33 205841 10300 98.42 0.2508 0.2496 0.2507 0.2739 0.2747 66.41
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 10.3948 f_angle_d 0.4336 f_chiral_restr 0.0412 f_plane_restr 0.0041 f_bond_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 26752 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 448
Software Software Software Name Purpose XDS data reduction XSCALE data scaling PHASER phasing Coot model building PHENIX refinement