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Non-covalent complex between Ubc9 and SUMO1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U9A PDB ENTRY 1U9A, 2BF8 experimental model PDB 2BF8 PDB ENTRY 1U9A, 2BF8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 16.5 % (W/V) PEG3350 100 MM BISTRIS PH 5.5 15 % (W/V) GLYCEROL
Crystal Properties Matthews coefficient Solvent content 2.2 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.481 α = 90 b = 35.03 β = 93.41 c = 72.915 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 CCD TOROIDAL MIRROR 2007-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 1.4 40 99.2 0.06 6.3 3.5 49557 1.5
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 1.48 99.3 0.23 1.6 3.1
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 1U9A, 2BF8 1.4 50 46681 2482 99.2 0.143 0.141 0.1506 0.178 0.1856 RANDOM 10.34
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] -0.3 -0.2 0.4 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.284 r_dihedral_angle_4_deg 12.991 r_dihedral_angle_3_deg 12.386 r_dihedral_angle_1_deg 5.722 r_scangle_it 4.382 r_scbond_it 2.993 r_mcangle_it 2.17 r_angle_refined_deg 1.556 r_mcbond_it 1.412 r_angle_other_deg 0.937
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.284 r_dihedral_angle_4_deg 12.991 r_dihedral_angle_3_deg 12.386 r_dihedral_angle_1_deg 5.722 r_scangle_it 4.382 r_scbond_it 2.993 r_mcangle_it 2.17 r_angle_refined_deg 1.556 r_mcbond_it 1.412 r_angle_other_deg 0.937 r_xyhbond_nbd_refined 0.253 r_symmetry_hbond_refined 0.25 r_nbd_refined 0.235 r_symmetry_vdw_other 0.222 r_symmetry_vdw_refined 0.208 r_nbd_other 0.193 r_nbtor_refined 0.177 r_chiral_restr 0.1 r_nbtor_other 0.082 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 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_mcbond_other r_mcangle_other r_scbond_other 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 1893 Nucleic Acid Atoms Solvent Atoms 408 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing