☰ Navigation Tabs
Crystal Structure of Nur77 LBD in complex with HTPA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3V3E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 PEG4000, Sodium citrate, Glycerol
Crystal Properties Matthews coefficient Solvent content 3.31 62.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.303 α = 90 b = 76.248 β = 90 c = 128.597 γ = 90
Symmetry Space Group P 21 21 21
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 2024-10-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.979 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.08 50 99.7 0.104 0.935 4.5 6.4 193042
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 2.08 2.12 0.936
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 2.081 32.17 44482 2263 99.803 0.182 0.1798 0.1891 0.2242 0.2313 27.52
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] 0.083 0.267 -0.349
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.236 r_dihedral_angle_6_deg 14.44 r_dihedral_angle_2_deg 11.492 r_lrange_it 8.063 r_lrange_other 8.044 r_scangle_it 6.226 r_scangle_other 6.225 r_dihedral_angle_1_deg 5.835 r_scbond_it 4.105 r_scbond_other 4.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.236 r_dihedral_angle_6_deg 14.44 r_dihedral_angle_2_deg 11.492 r_lrange_it 8.063 r_lrange_other 8.044 r_scangle_it 6.226 r_scangle_other 6.225 r_dihedral_angle_1_deg 5.835 r_scbond_it 4.105 r_scbond_other 4.104 r_mcangle_other 3.998 r_mcangle_it 3.997 r_mcbond_it 2.813 r_mcbond_other 2.813 r_angle_refined_deg 1.979 r_angle_other_deg 0.741 r_symmetry_nbd_refined 0.293 r_nbd_refined 0.233 r_nbd_other 0.224 r_nbtor_refined 0.186 r_symmetry_nbd_other 0.182 r_symmetry_xyhbond_nbd_refined 0.166 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.119 r_symmetry_nbtor_other 0.083 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3636 Nucleic Acid Atoms Solvent Atoms 237 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHASER phasing