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Crystal structure of murine 4-1BB from HEK293T cells in P21 space group
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 295.15 0.1 M sodium acetate pH 4.5, 30% w/V polyethylene glycol (PEG) 8000, and 0.2 M lithium sulfate
Crystal Properties Matthews coefficient Solvent content 3.55 65.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.011 α = 90 b = 61.763 β = 91.53 c = 110.75 γ = 90
Symmetry Space Group P 1 21 1
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 PILATUS3 6M 2016-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.976 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.95 40 91.8 0.129 0.154 0.084 6.9 3.1 17070
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.95 3.06 67.5 0.283 0.348 0.199 0.916 2.4 1237
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 2.95 40 16177 881 91.01 0.2376 0.2353 0.2381 0.2791 0.2837 RANDOM 71.576
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] -0.07 -0.01 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.699 r_dihedral_angle_3_deg 15.361 r_dihedral_angle_4_deg 14.692 r_dihedral_angle_1_deg 6.172 r_angle_refined_deg 1.485 r_angle_other_deg 1.27 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_bond_other_d 0.005 r_gen_planes_refined 0.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.699 r_dihedral_angle_3_deg 15.361 r_dihedral_angle_4_deg 14.692 r_dihedral_angle_1_deg 6.172 r_angle_refined_deg 1.485 r_angle_other_deg 1.27 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_bond_other_d 0.005 r_gen_planes_refined 0.005 r_gen_planes_other 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3923 Nucleic Acid Atoms Solvent Atoms 91 Heterogen Atoms 319
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling PDB_EXTRACT data extraction HKL-2000 data reduction PHASER phasing