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Crystal structure of the mouse TAB2-NZF in complex with Lys63-linked di-ubiquitin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 90mM Bis-Tris-HCl (pH 6.5), 180mM ammonium acetate, 21% PE3350, 4% pentaerythritol ethoxylate, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.83 32.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.085 α = 90 b = 71.478 β = 90 c = 72.029 γ = 90
Symmetry Space Group P 21 21 21
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 RAYONIX MX225HE mirrors 2009-05-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU
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 1.18 50 96 0.046 55.5 52096 52096
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) 1.18 1.19 88.3 0.246 3.05
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.18 36.01 52096 47387 2557 96.07 0.16573 0.16436 0.1626 0.19097 0.1891 RANDOM 17.196
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] -1.59 0.83 0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.478 r_dihedral_angle_3_deg 12.948 r_sphericity_free 10.811 r_sphericity_bonded 9.733 r_dihedral_angle_4_deg 8.311 r_dihedral_angle_1_deg 6.133 r_scangle_it 5.637 r_scbond_it 3.84 r_mcangle_it 3.11 r_mcbond_it 2.106
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.478 r_dihedral_angle_3_deg 12.948 r_sphericity_free 10.811 r_sphericity_bonded 9.733 r_dihedral_angle_4_deg 8.311 r_dihedral_angle_1_deg 6.133 r_scangle_it 5.637 r_scbond_it 3.84 r_mcangle_it 3.11 r_mcbond_it 2.106 r_rigid_bond_restr 2.059 r_angle_refined_deg 1.766 r_symmetry_vdw_refined 0.378 r_nbtor_refined 0.314 r_symmetry_hbond_refined 0.252 r_nbd_refined 0.218 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.123 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1500 Nucleic Acid Atoms Solvent Atoms 205 Heterogen Atoms 1
Software Software Software Name Purpose ADSC data collection SHARP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling