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NXT1-NXF1 complex crystallized in space group P65 2 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JN5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 3 M Sodium acetate
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.332 α = 90 b = 105.332 β = 90 c = 171.409 γ = 120
Symmetry Space Group P 65 2 2
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 EIGER X 9M 2025-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9220 Diamond I04-1
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 1.5 91.22 100 0.113 16.6 37.5 89974
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 1.5 1.53 5.265
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 FREE R-VALUE 1.501 91.22 89879 2020 99.951 0.171 0.1703 0.1703 0.2005 0.2005 38.7
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] 0.107 0.054 0.107 -0.347
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 23.744 r_lrange_other 23.26 r_scangle_it 19.919 r_scangle_other 19.914 r_mcangle_other 15.742 r_mcangle_it 15.74 r_dihedral_angle_6_deg 14.745 r_scbond_it 14.273 r_scbond_other 14.252 r_dihedral_angle_3_deg 11.849
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 23.744 r_lrange_other 23.26 r_scangle_it 19.919 r_scangle_other 19.914 r_mcangle_other 15.742 r_mcangle_it 15.74 r_dihedral_angle_6_deg 14.745 r_scbond_it 14.273 r_scbond_other 14.252 r_dihedral_angle_3_deg 11.849 r_mcbond_it 11.614 r_mcbond_other 11.589 r_dihedral_angle_1_deg 6.426 r_dihedral_angle_2_deg 6.115 r_rigid_bond_restr 5.081 r_angle_refined_deg 1.644 r_angle_other_deg 0.615 r_symmetry_nbd_refined 0.352 r_nbd_refined 0.209 r_symmetry_nbd_other 0.197 r_symmetry_xyhbond_nbd_refined 0.197 r_nbtor_refined 0.178 r_xyhbond_nbd_refined 0.166 r_nbd_other 0.152 r_chiral_restr 0.093 r_symmetry_nbtor_other 0.079 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2543 Nucleic Acid Atoms Solvent Atoms 195 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling SIMBAD phasing