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M. smegmatis antimutator protein MutT2 in complex with 5mdCTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ZRC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 292 0.2 M Ammonium acetate, 0.1 M Sodium citrate tribasic dihydrate pH 5.6, 30% w/v PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.05 38.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.61 α = 90 b = 72.76 β = 104.7 c = 57.86 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 CCD MARMOSAIC 300 mm CCD 2015-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.953720 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.41 24.36 96 0.064 7 2.1 46731
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.41 1.49 94 0.43 2
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5ZRC 1.41 24.36 44340 2349 95.68 0.14283 0.14062 0.1404 0.18392 0.1835 RANDOM 23.099
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] 0.23 0.61 -0.12 -0.38
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 40.055 r_dihedral_angle_2_deg 28.862 r_sphericity_bonded 19.625 r_dihedral_angle_4_deg 13.834 r_dihedral_angle_3_deg 13.59 r_long_range_B_refined 8.558 r_long_range_B_other 8.557 r_scangle_other 8.527 r_rigid_bond_restr 7.331 r_scbond_it 7.244
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 40.055 r_dihedral_angle_2_deg 28.862 r_sphericity_bonded 19.625 r_dihedral_angle_4_deg 13.834 r_dihedral_angle_3_deg 13.59 r_long_range_B_refined 8.558 r_long_range_B_other 8.557 r_scangle_other 8.527 r_rigid_bond_restr 7.331 r_scbond_it 7.244 r_scbond_other 7.243 r_dihedral_angle_1_deg 7.151 r_mcangle_other 4.551 r_mcangle_it 4.54 r_mcbond_it 3.91 r_mcbond_other 3.722 r_angle_refined_deg 1.404 r_angle_other_deg 0.73 r_chiral_restr 0.086 r_gen_planes_refined 0.014 r_bond_refined_d 0.009 r_gen_planes_other 0.006 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1914 Nucleic Acid Atoms Solvent Atoms 311 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing