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Crystal Structure Analysis of the UBF HMG box5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 NaCl, pH 7.5, vapor diffusion, hanging drop, temperature 277K 2 VAPOR DIFFUSION, HANGING DROP 7.5 277 Se-Met derivate, pH 7.5, vapor diffusion, hanging drop, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.812 α = 90 b = 60.812 β = 90 c = 63.158 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 ADSC QUANTUM 210 2004-08-24 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MAR CCD 165 mm 2005-05-03 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE A1 0.9363 CHESS A1 2 SYNCHROTRON BSRF BEAMLINE 3W1A 0.97985 BSRF 3W1A
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 2 30 99.3 0.046 0.049 35.6 11.1 9000 8917 2 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) 1,2 2 2.03 93.3 0.185 10 431
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 (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 SAD THROUGHOUT 2 10 8492 8492 425 99.49 0.22 0.21953 0.217 0.223 0.267 0.2643 RANDOM 28.535
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] 2.21 1.11 2.21 -3.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.991 r_dihedral_angle_4_deg 16.373 r_dihedral_angle_3_deg 11.677 r_dihedral_angle_1_deg 4.993 r_scangle_it 4.539 r_scbond_it 3.009 r_mcangle_it 1.504 r_angle_refined_deg 1.446 r_mcbond_it 1.114 r_nbtor_refined 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.991 r_dihedral_angle_4_deg 16.373 r_dihedral_angle_3_deg 11.677 r_dihedral_angle_1_deg 4.993 r_scangle_it 4.539 r_scbond_it 3.009 r_mcangle_it 1.504 r_angle_refined_deg 1.446 r_mcbond_it 1.114 r_nbtor_refined 0.294 r_symmetry_hbond_refined 0.27 r_xyhbond_nbd_refined 0.219 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.13 r_chiral_restr 0.102 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 561 Nucleic Acid Atoms Solvent Atoms 91 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection