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Structure of the ZNF UBP domain from deubiquitinating enzyme isopeptidase T (IsoT)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 300 16% polyethylene glycol 8000, 0.8 M sodium cacodylate pH 6.5, 0.16 M calcium acetate, 20% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 300K, pH 6.50
Crystal Properties Matthews coefficient Solvent content 2.68 54.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.38 α = 90 b = 86.18 β = 99.29 c = 59.9 γ = 90
Symmetry Space Group C 1 2 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 4 2005-05-05 M MAD 2 1 x-ray M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 1.28020, 1.2790, 1.12810, 0.97623 NSLS X26C
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 2.09 35 96.7 0.047 27.7 2.8 17788 -3 21.2
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) 2.09 2.16 97.2 0.064 16.7
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.09 35 17788 17788 1743 96.7 0.228 0.228 0.274 RANDOM 41.5
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] -7.05 1.41 3.72 3.33
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.2 c_scangle_it 3.79 c_mcangle_it 2.64 c_scbond_it 2.45 c_mcbond_it 1.58 c_angle_deg 1.4 c_improper_angle_d 0.82 c_bond_d 0.005 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.2 c_scangle_it 3.79 c_mcangle_it 2.64 c_scbond_it 2.45 c_mcbond_it 1.58 c_angle_deg 1.4 c_improper_angle_d 0.82 c_bond_d 0.005 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1757 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 5
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling SOLVE phasing CNS refinement HKL-2000 data reduction