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The crystal structure of the HINT1 Q62A mutant.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TW2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 281 16% (w/v) PEG3350, 0.2 M sodium citrate, 0.1 M sodium cacodylate pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.52 51.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.891 α = 90 b = 112.891 β = 90 c = 43.634 γ = 90
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 2019-11-30 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) 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 2.27 43.63 100 0.19 0.078 0.997 10.1 13.3 25856 41.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.27 2.34 100 1.621 0.66 0.748 2 13.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3TW2 2.27 40.733 25842 1305 99.95 0.167 0.1636 0.1724 0.2202 0.2286 43.865
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] -2.047 -2.047 4.094
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.952 r_dihedral_angle_4_deg 16.85 r_dihedral_angle_3_deg 16.567 r_lrange_it 8.773 r_lrange_other 8.762 r_dihedral_angle_1_deg 7.309 r_scangle_it 6.915 r_scangle_other 6.913 r_mcangle_it 5.609 r_mcangle_other 5.609
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.952 r_dihedral_angle_4_deg 16.85 r_dihedral_angle_3_deg 16.567 r_lrange_it 8.773 r_lrange_other 8.762 r_dihedral_angle_1_deg 7.309 r_scangle_it 6.915 r_scangle_other 6.913 r_mcangle_it 5.609 r_mcangle_other 5.609 r_scbond_it 4.564 r_scbond_other 4.563 r_mcbond_it 3.978 r_mcbond_other 3.977 r_angle_refined_deg 1.698 r_angle_other_deg 1.237 r_nbd_refined 0.189 r_symmetry_nbd_other 0.181 r_xyhbond_nbd_refined 0.153 r_nbtor_refined 0.152 r_nbd_other 0.132 r_symmetry_xyhbond_nbd_refined 0.12 r_symmetry_nbd_refined 0.114 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.076 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3572 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing