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Structure of U2AF65 variant with BrU3 DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2G4B PDB ENTRY 2G4B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.89 57.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 164.296 α = 90 b = 36.981 β = 125.67 c = 99.431 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 315r 2005-11-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 0.960 NSLS X25
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 2.49 50 99.3 0.134 18.3 6.6 17441 -1
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 2.49 2.58 99.3 0.455 4.7 1612
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 (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 2G4B 2.49 20.51 17997 16380 1617 93.5 0.2361 0.2305 0.2289 0.2886 0.2797 RANDOM 35.2124
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] -0.64 0.5 0.23 1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.579 r_dihedral_angle_4_deg 16.232 r_dihedral_angle_3_deg 16.179 r_dihedral_angle_1_deg 6.179 r_scangle_it 1.793 r_angle_refined_deg 1.401 r_scbond_it 1.149 r_angle_other_deg 1.093 r_mcangle_it 0.633 r_mcbond_it 0.509
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.579 r_dihedral_angle_4_deg 16.232 r_dihedral_angle_3_deg 16.179 r_dihedral_angle_1_deg 6.179 r_scangle_it 1.793 r_angle_refined_deg 1.401 r_scbond_it 1.149 r_angle_other_deg 1.093 r_mcangle_it 0.633 r_mcbond_it 0.509 r_nbd_refined 0.216 r_nbd_other 0.196 r_symmetry_vdw_refined 0.194 r_nbtor_refined 0.188 r_symmetry_vdw_other 0.174 r_symmetry_hbond_refined 0.16 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.096 r_nbtor_other 0.086 r_mcbond_other 0.082 r_xyhbond_nbd_other 0.041 r_bond_refined_d 0.011 r_bond_other_d 0.005 r_gen_planes_refined 0.004 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2675 Nucleic Acid Atoms 226 Solvent Atoms 119 Heterogen Atoms 87
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection PHASER phasing