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Crystal structure of DNPH1 bound by compound 2.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Non-public structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 25 % PEG3350, 0.2 M MgCl2, 0.1 M Bis-Tris pH 6.5
Crystal Properties Matthews coefficient Solvent content 1.83 32.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.717 α = 91.96 b = 39.605 β = 99.92 c = 48.52 γ = 114.71
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 2025-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.95373 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.597 47.46 79.9 0.989 3.6 2.7 13312
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.597 1.887 0.819
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 (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 1.597 47.46 13312 658 41.3 0.2097 0.2069 0.201 0.2643 0.2558 RANDOM 18.4
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] -0.3193 0.9617 0.3102 -0.432 -0.8637 0.7513
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 18.82 t_omega_torsion 3.36 t_angle_deg 0.96 t_bond_d 0.01 t_dihedral_angle_d t_gen_planes t_it t_chiral_improper_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1937 Nucleic Acid Atoms Solvent Atoms 73 Heterogen Atoms 50
Software Software Software Name Purpose BUSTER refinement autoPROC data reduction SCALA data scaling XDS data scaling PHASER phasing