☰ Navigation Tabs
Structure of USP15 DUSP-UBL deletion mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PV1 PDB ENTRY 3PV1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 1.9 M (NH4)2SO4, 100 MM HEPES PH 7.0, 200 MM KI.
Crystal Properties Matthews coefficient Solvent content 2.19 43.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.95 α = 90 b = 44.25 β = 104.33 c = 56.15 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 CCD ADSC QUANTUM 4r DUAL SLITS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 Diamond I02
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 1.4 34.33 92.8 0.03 13.4 2.2 39193 13.4 27.2
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) 1 1.4 1.47 95 0.2 3.9 2.2
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 PDB ENTRY 3PV1 1.4 27.2 37168 1981 92.27 0.15652 0.153 0.1686 0.22126 0.2251 RANDOM 18.149
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] 0.03 -0.13 0.04 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.109 r_sphericity_free 28.951 r_rigid_bond_restr 16.083 r_mcangle_it 15.308 r_dihedral_angle_4_deg 14.948 r_sphericity_bonded 13.999 r_mcbond_other 13.868 r_mcbond_it 13.509 r_dihedral_angle_3_deg 13.376 r_dihedral_angle_1_deg 5.667
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.109 r_sphericity_free 28.951 r_rigid_bond_restr 16.083 r_mcangle_it 15.308 r_dihedral_angle_4_deg 14.948 r_sphericity_bonded 13.999 r_mcbond_other 13.868 r_mcbond_it 13.509 r_dihedral_angle_3_deg 13.376 r_dihedral_angle_1_deg 5.667 r_angle_refined_deg 1.891 r_angle_other_deg 1.212 r_symmetry_vdw_other 0.505 r_symmetry_vdw_refined 0.441 r_symmetry_hbond_refined 0.324 r_nbd_refined 0.321 r_xyhbond_nbd_refined 0.264 r_nbd_other 0.236 r_nbtor_refined 0.191 r_chiral_restr 0.124 r_nbtor_other 0.11 r_bond_refined_d 0.02 r_gen_planes_refined 0.011 r_gen_planes_other 0.004 r_bond_other_d 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1713 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing