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Crystal structure of the mCD1d/7DW8-5/iNKTCR ternary complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Q7Y 2Q7Y and 3QUZ experimental model PDB 3QUZ 2Q7Y and 3QUZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295.5 17% PEG 4000, 8% tascimate pH 4.0
Crystal Properties Matthews coefficient Solvent content 3.28 62.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.422 α = 90 b = 150.264 β = 96.24 c = 100.8 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 CCD ADSC QUANTUM 315r 2011-04-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0 ALS 5.0.2
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 3.05 50 99.3 0.093 7.9 3 44418
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 3.05 3.12 99.8 0.536 3 2950
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 2Q7Y and 3QUZ 3.05 49.41 43007 1388 99.23 0.2181 0.2168 0.2159 0.2574 0.2551 RANDOM 70.5
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] -0.14 -0.19 -0.06 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.45 r_dihedral_angle_4_deg 14.383 r_dihedral_angle_3_deg 13.081 r_dihedral_angle_1_deg 5.597 r_angle_refined_deg 0.994 r_mcangle_it 0.839 r_angle_other_deg 0.803 r_mcbond_it 0.468 r_mcbond_other 0.468 r_chiral_restr 0.056
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.45 r_dihedral_angle_4_deg 14.383 r_dihedral_angle_3_deg 13.081 r_dihedral_angle_1_deg 5.597 r_angle_refined_deg 0.994 r_mcangle_it 0.839 r_angle_other_deg 0.803 r_mcbond_it 0.468 r_mcbond_other 0.468 r_chiral_restr 0.056 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11627 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 316
Software Software Software Name Purpose HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction