☰ Navigation Tabs
Crystal structure of a dimer of Notch Transcription Complex trimers on HES1 DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F8X protein components of 2F8X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 3% PEG3350, 10% ethylene glycol, 0.15M NaCl, 0.1M magnesium chloride, 0.1M BIS-TRIS, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.87 68.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 295.112 α = 90 b = 108.059 β = 102.52 c = 87.239 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 2007-06-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97926 APS 24-ID-C
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 3.45 50 99.9 0.063 12.4 9.5 35389
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) 3.45 3.51 99.9 0.396 7.2 1733
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 protein components of 2F8X 3.45 45.02 35361 1802 99.55 0.256 0.254 0.2419 0.298 0.2898 RANDOM 126.54
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] 0.05 0.02 -0.11 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.411 r_dihedral_angle_3_deg 22.912 r_dihedral_angle_4_deg 16.706 r_dihedral_angle_1_deg 8.693 r_scangle_it 1.873 r_angle_refined_deg 1.609 r_mcangle_it 1.266 r_angle_other_deg 1.049 r_scbond_it 1.039 r_mcbond_it 0.681
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.411 r_dihedral_angle_3_deg 22.912 r_dihedral_angle_4_deg 16.706 r_dihedral_angle_1_deg 8.693 r_scangle_it 1.873 r_angle_refined_deg 1.609 r_mcangle_it 1.266 r_angle_other_deg 1.049 r_scbond_it 1.039 r_mcbond_it 0.681 r_chiral_restr 0.081 r_mcbond_other 0.073 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10686 Nucleic Acid Atoms 1512 Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction HKL-2000 data scaling