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Crystal structure of dog MTH1 protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ZR1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 0.1 M Sodium acetate, pH 3.5, 0.2 M Li2SO4, 0.5 % w/v n-octyl-beta-D-glucoside and 34 % PEG6000
Crystal Properties Matthews coefficient Solvent content 2.19 43.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.459 α = 90 b = 67.353 β = 90.28 c = 93.256 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 PILATUS 6M 2014-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
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 2 48.4 99.6 0.099 9.5 3.8 47302
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 2 2.05 99.8 0.345 3.7 3.9 3496
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 3ZR1 2 48.4 44917 2364 99.6 0.19203 0.18978 0.2 0.2338 0.2396 RANDOM 18.242
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] -0.38 -1.44 -0.86 1.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.786 r_dihedral_angle_4_deg 15.929 r_dihedral_angle_3_deg 14.654 r_dihedral_angle_1_deg 6.344 r_long_range_B_refined 5.009 r_long_range_B_other 5.009 r_scangle_other 2.491 r_mcangle_it 1.8 r_mcangle_other 1.8 r_scbond_it 1.522
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.786 r_dihedral_angle_4_deg 15.929 r_dihedral_angle_3_deg 14.654 r_dihedral_angle_1_deg 6.344 r_long_range_B_refined 5.009 r_long_range_B_other 5.009 r_scangle_other 2.491 r_mcangle_it 1.8 r_mcangle_other 1.8 r_scbond_it 1.522 r_scbond_other 1.522 r_angle_refined_deg 1.316 r_mcbond_it 1.082 r_mcbond_other 1.078 r_angle_other_deg 0.719 r_chiral_restr 0.081 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5185 Nucleic Acid Atoms Solvent Atoms 398 Heterogen Atoms 83
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing