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UCH-L5 in complex with ubiquitin-propargyl bound to the RPN13 DEUBAD domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 277 100 MM BIS-TRIS-PROPANE PH 5.8, 300 MM NABR, 21% PEG3350. 4 DEGREES CELSIUS
Crystal Properties Matthews coefficient Solvent content 2.4 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.34 α = 90 b = 98.6 β = 90 c = 100.211 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 PIXEL DECTRIS PILATUS 2M-F 2013-09-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 2.3 45.34 99.8 0.13 9.7 4.1 26979 1.6
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 2.3 2.38 98.9 0.83 1.6 4.1
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 2.3 70.28 25531 1354 99.74 0.19365 0.19141 0.1978 0.23426 0.238 RANDOM 41.613
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] 2.65 -0.63 -2.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.06 r_dihedral_angle_4_deg 15.08 r_dihedral_angle_3_deg 13.323 r_dihedral_angle_1_deg 5.084 r_mcangle_it 4.278 r_scbond_it 4.021 r_mcbond_other 2.933 r_mcbond_it 2.932 r_angle_refined_deg 0.993 r_angle_other_deg 0.683
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.06 r_dihedral_angle_4_deg 15.08 r_dihedral_angle_3_deg 13.323 r_dihedral_angle_1_deg 5.084 r_mcangle_it 4.278 r_scbond_it 4.021 r_mcbond_other 2.933 r_mcbond_it 2.932 r_angle_refined_deg 0.993 r_angle_other_deg 0.683 r_chiral_restr 0.055 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3762 Nucleic Acid Atoms Solvent Atoms 234 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing