☰ Navigation Tabs
Crystal structure of human histidine triad nucleotide-binding protein 1 (hHINT1) refined to 1.92A at P21 space group
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 6.8 281 18% PEG 4000, 0.1M sodium cacodylate pH 6.8
Crystal Properties Matthews coefficient Solvent content 2.27 45.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.214 α = 90 b = 79.001 β = 90.1 c = 63.876 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 RAYONIX MX-225 2014-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2
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 1.92 46.21 97.8 0.169 5.3 2.2 34309 30.4
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 1.92 1.97 98.5 0.532 1.6 2.2
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 3TW2 1.92 33.6 32590 1697 97.19 0.21274 0.20892 0.2193 0.28662 0.2939 RANDOM 19.043
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] -17.63 -1.45 22.73 -5.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.068 r_dihedral_angle_3_deg 16.294 r_dihedral_angle_4_deg 10.977 r_dihedral_angle_1_deg 6.965 r_long_range_B_refined 4.15 r_long_range_B_other 3.704 r_angle_refined_deg 1.882 r_angle_other_deg 1.825 r_mcangle_it 0.909 r_mcangle_other 0.909
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.068 r_dihedral_angle_3_deg 16.294 r_dihedral_angle_4_deg 10.977 r_dihedral_angle_1_deg 6.965 r_long_range_B_refined 4.15 r_long_range_B_other 3.704 r_angle_refined_deg 1.882 r_angle_other_deg 1.825 r_mcangle_it 0.909 r_mcangle_other 0.909 r_scangle_other 0.833 r_scbond_it 0.58 r_mcbond_it 0.562 r_mcbond_other 0.562 r_scbond_other 0.525 r_chiral_restr 0.117 r_bond_refined_d 0.02 r_gen_planes_refined 0.015 r_bond_other_d 0.013 r_gen_planes_other 0.012 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 3568 Nucleic Acid Atoms Solvent Atoms 751 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing