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Crystal structure of human MTH1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FK9 PDB ENTRY 3FK9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 26 % PEG6000, 0.1 M SODIUM ACETATE TRIHYDRATE PH 4.0, 0.2 M LI2SO4
Crystal Properties Matthews coefficient Solvent content 2.28 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.52 α = 90 b = 67.08 β = 90 c = 80.13 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 CCD MARMOSAIC 225 mm CCD 2011-03-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 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 1.9 34 99.2 0.1 11.6 5.1 25933
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 1.9 2 97.8 0.57 3.3 5
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 PDB ENTRY 3FK9 1.9 51.44 24313 1311 98.81 0.19339 0.19067 0.198 0.24455 0.2523 RANDOM 18.576
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] -1.31 -0.43 1.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.742 r_dihedral_angle_3_deg 13.607 r_dihedral_angle_4_deg 10.401 r_dihedral_angle_1_deg 7.1 r_scangle_it 5.459 r_scbond_it 3.371 r_mcangle_it 1.92 r_angle_refined_deg 1.831 r_angle_other_deg 1.279 r_mcbond_it 1.038
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.742 r_dihedral_angle_3_deg 13.607 r_dihedral_angle_4_deg 10.401 r_dihedral_angle_1_deg 7.1 r_scangle_it 5.459 r_scbond_it 3.371 r_mcangle_it 1.92 r_angle_refined_deg 1.831 r_angle_other_deg 1.279 r_mcbond_it 1.038 r_mcbond_other 0.227 r_chiral_restr 0.121 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2476 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling BALBES phasing