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Crystal structure of T-cell receptor V beta domain variant complexed with superantigen SEC3 mutant
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 20% PEG 3350, 0.2M tri-ammonium citrate, 0.3% dioxane, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.8 55.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.2 α = 74.79 b = 70.186 β = 75.05 c = 98.403 γ = 88.54
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.0722 NSLS X25
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 2.1 40 89.8 0.034 2.5 81743 2 4
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) 2.1 2.18 79.9 66 0.222 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.1 35 91912 81743 4468 95.98 0.188 0.187 0.185 0.1952 0.243 0.1967 RANDOM 45.303
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] 2.36 -0.62 0.88 -0.95 0.35 -2.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.949 r_dihedral_angle_3_deg 17.68 r_dihedral_angle_4_deg 14.4 r_dihedral_angle_1_deg 7.841 r_scangle_it 4.45 r_scbond_it 3.127 r_mcangle_it 2.322 r_angle_refined_deg 2.016 r_mcbond_it 1.401 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.949 r_dihedral_angle_3_deg 17.68 r_dihedral_angle_4_deg 14.4 r_dihedral_angle_1_deg 7.841 r_scangle_it 4.45 r_scbond_it 3.127 r_mcangle_it 2.322 r_angle_refined_deg 2.016 r_mcbond_it 1.401 r_nbtor_refined 0.311 r_nbd_refined 0.244 r_symmetry_hbond_refined 0.212 r_xyhbond_nbd_refined 0.182 r_symmetry_vdw_refined 0.178 r_chiral_restr 0.145 r_bond_refined_d 0.024 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11089 Nucleic Acid Atoms Solvent Atoms 584 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MOLREP phasing