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Crystallographic structure of human Tsg101 UEV domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1S1Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 288 20% PEG 4000, 0.2 M ammonium sulphate, 0.1 M Tris , pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.79 55.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.865 α = 90 b = 97.865 β = 90 c = 110.583 γ = 120
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 BRUKER PROTEUM X8 2005-10-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.25 60 92.4 0.03 0.04 26.3 5.5 17160 1 1 41.713
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.255 2.314 91.73
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1s1q 2.26 30 17062 16192 870 91.73 0.19059 0.19059 0.18768 0.1909 0.24271 0.1868 RANDOM 44.011
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] -3.62 -1.81 -3.62 5.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.819 r_dihedral_angle_4_deg 29.475 r_dihedral_angle_3_deg 16.335 r_dihedral_angle_1_deg 6.695 r_scangle_it 3.855 r_scbond_it 2.573 r_angle_refined_deg 1.785 r_mcangle_it 1.462 r_mcbond_it 0.929 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.819 r_dihedral_angle_4_deg 29.475 r_dihedral_angle_3_deg 16.335 r_dihedral_angle_1_deg 6.695 r_scangle_it 3.855 r_scbond_it 2.573 r_angle_refined_deg 1.785 r_mcangle_it 1.462 r_mcbond_it 0.929 r_nbtor_refined 0.312 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.191 r_symmetry_hbond_refined 0.187 r_symmetry_vdw_refined 0.118 r_chiral_restr 0.111 r_bond_refined_d 0.02 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2314 Nucleic Acid Atoms Solvent Atoms 241 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement SAINT data reduction CCP4 data scaling MOLREP phasing