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Crystal structure of the heterotrimeric interleukin-2 receptor in complex with interleukin-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2B5I PDB structure 2B5I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.1 295.5 MPEG 550, sodium acetate, sodium citrate, phenol, pH 5.1, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K
Crystal Properties Matthews coefficient Solvent content 2.69 54.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.266 α = 83.85 b = 70.545 β = 82.45 c = 129.236 γ = 89.72
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315 2004-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 1.0781 ALS 8.2.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3 129.1 94.4 0.08 7.8 1.9 39459 37249
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.11 75.3 0.5 1.7 1.6 3924
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB structure 2B5I 3 129.1 37863 35379 1864 93.44 0.22254 0.22254 0.22047 0.26288 0.2504 RANDOM 91.905
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] -0.2 -1.12 -0.81 0.29 -0.37 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.888 r_dihedral_angle_3_deg 18.496 r_dihedral_angle_4_deg 13.513 r_dihedral_angle_1_deg 6.446 r_scangle_it 1.659 r_angle_refined_deg 1.269 r_scbond_it 0.93 r_mcangle_it 0.622 r_mcbond_it 0.34 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.888 r_dihedral_angle_3_deg 18.496 r_dihedral_angle_4_deg 13.513 r_dihedral_angle_1_deg 6.446 r_scangle_it 1.659 r_angle_refined_deg 1.269 r_scbond_it 0.93 r_mcangle_it 0.622 r_mcbond_it 0.34 r_nbtor_refined 0.312 r_symmetry_vdw_refined 0.238 r_nbd_refined 0.217 r_xyhbond_nbd_refined 0.142 r_symmetry_hbond_refined 0.108 r_chiral_restr 0.083 r_bond_refined_d 0.009 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10837 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 350
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing