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The crystal structure of holo T3CT
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5DIJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 HEPES, magnesium chloride, Sodium polyacrylate 5100
Crystal Properties Matthews coefficient Solvent content 2.84 56.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.194 α = 90 b = 204.76 β = 91.1 c = 126.047 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 PSI PILATUS 6M 2015-09-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.978 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.49 50 99.2 5.7 6.8 182212
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 2.49 2.58 96.8 0.75 1.83 6.9
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 5DIJ 2.49 50 173050 9162 99.24 0.19537 0.19398 0.1983 0.22164 0.226 RANDOM 44.519
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] -0.64 -0.29 0.73 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.788 r_dihedral_angle_3_deg 15.689 r_dihedral_angle_4_deg 14.901 r_long_range_B_refined 9.068 r_long_range_B_other 9.068 r_scangle_other 6.827 r_dihedral_angle_1_deg 6.048 r_mcangle_it 5.191 r_mcangle_other 5.191 r_scbond_it 4.398
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.788 r_dihedral_angle_3_deg 15.689 r_dihedral_angle_4_deg 14.901 r_long_range_B_refined 9.068 r_long_range_B_other 9.068 r_scangle_other 6.827 r_dihedral_angle_1_deg 6.048 r_mcangle_it 5.191 r_mcangle_other 5.191 r_scbond_it 4.398 r_scbond_other 4.398 r_mcbond_it 3.465 r_mcbond_other 3.464 r_angle_refined_deg 1.668 r_angle_other_deg 1.469 r_chiral_restr 0.135 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_bond_other_d 0.008 r_gen_planes_other 0.007 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 32182 Nucleic Acid Atoms Solvent Atoms 696 Heterogen Atoms 186
Software Software Software Name Purpose REFMAC refinement PHENIX phasing HKL-2000 data scaling