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The Crystal Structure of RORgT from Biortus.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6E3E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1.2M sodium formate, 3% MPD, 0.1M HEPES pH 7.4+ 0.1M Adenosine-5-triphosphate diNa salt
Crystal Properties Matthews coefficient Solvent content 3.19 61.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.809 α = 90 b = 99.809 β = 90 c = 125.49 γ = 120
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 2023-10-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1 SPring-8 BL45XU
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 3.5 46.37 99.9 0.177 11.1 10.4 9025
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 3.5 3.83 1.076
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 3.5 43.256 8997 418 99.922 0.203 0.2011 0.2095 0.2493 0.2535 103.802
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] 1.129 0.565 1.129 -3.663
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.338 r_dihedral_angle_4_deg 16.454 r_dihedral_angle_3_deg 15.433 r_lrange_it 14.686 r_lrange_other 14.686 r_scangle_it 8.762 r_scangle_other 8.76 r_mcangle_it 8.616 r_mcangle_other 8.614 r_mcbond_other 5.437
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.338 r_dihedral_angle_4_deg 16.454 r_dihedral_angle_3_deg 15.433 r_lrange_it 14.686 r_lrange_other 14.686 r_scangle_it 8.762 r_scangle_other 8.76 r_mcangle_it 8.616 r_mcangle_other 8.614 r_mcbond_other 5.437 r_mcbond_it 5.436 r_scbond_it 5.172 r_scbond_other 5.171 r_dihedral_angle_1_deg 4.319 r_angle_refined_deg 1.181 r_angle_other_deg 1.169 r_nbd_other 0.239 r_nbd_refined 0.217 r_symmetry_nbd_refined 0.215 r_symmetry_xyhbond_nbd_refined 0.165 r_symmetry_nbd_other 0.163 r_nbtor_refined 0.158 r_ncsr_local_group_1 0.106 r_xyhbond_nbd_refined 0.086 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.05 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3738 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing