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Crystal structure of human Histidine Triad Nucleotide-Binding Protein 1 in complex with N-(2-fluoroethyl)morpholino adenosine 6'-O-phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6YQM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 281 14% w/v PEG4000, 0.1 M MES pH 6.0
Crystal Properties Matthews coefficient Solvent content 2.06 40.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.368 α = 90 b = 46.263 β = 94.567 c = 63.975 γ = 90
Symmetry Space Group C 1 2 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 RIGAKU HyPix-6000HE 2026-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE RIGAKU PhotonJet-S 1.54184
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 1.801 19.009 97.3 0.059 0.044 0.997 12.3 2.3 20521 8.8
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 1.801 1.84 99 0.229 0.19 0.923 4 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.801 19.009 20505 947 97.374 0.133 0.1308 0.1317 0.1792 0.1798 10.683
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] 1.448 -0.16 -0.931 -0.486
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.407 r_dihedral_angle_3_deg 13.244 r_dihedral_angle_2_deg 7.335 r_dihedral_angle_1_deg 6.401 r_lrange_it 5.384 r_lrange_other 4.789 r_scangle_it 2.596 r_scangle_other 2.595 r_angle_refined_deg 1.713 r_scbond_it 1.645
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 15.407 r_dihedral_angle_3_deg 13.244 r_dihedral_angle_2_deg 7.335 r_dihedral_angle_1_deg 6.401 r_lrange_it 5.384 r_lrange_other 4.789 r_scangle_it 2.596 r_scangle_other 2.595 r_angle_refined_deg 1.713 r_scbond_it 1.645 r_scbond_other 1.645 r_mcangle_it 1.631 r_mcangle_other 1.63 r_mcbond_it 1.02 r_mcbond_other 1.019 r_angle_other_deg 0.614 r_nbd_refined 0.247 r_symmetry_xyhbond_nbd_refined 0.235 r_xyhbond_nbd_refined 0.195 r_symmetry_nbd_other 0.188 r_nbtor_refined 0.168 r_nbd_other 0.154 r_symmetry_xyhbond_nbd_other 0.129 r_symmetry_nbd_refined 0.101 r_chiral_restr 0.09 r_symmetry_nbtor_other 0.082 r_bond_refined_d 0.009 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 1767 Nucleic Acid Atoms Solvent Atoms 321 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction Aimless data scaling MOLREP phasing