☰ Navigation Tabs
THE RUNX1 Runt domain at 1.4A resolution: a structural switch and specifically bound chloride ions modulate DNA binding
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other EBI-8233
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.4 25 % PEG 3350, 16% GLYCEROL, 130 MM NA CACODYLATE, PH 6.4
Crystal Properties Matthews coefficient Solvent content 2.2 34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.066 α = 90 b = 46.173 β = 91.94 c = 62.904 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 CCD MIRROR 2000-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 24 97.5 0.079 10.9 4.45 50436
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 1.45 96.4 0.23 4 4
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT EBI-8233 1.4 24.77 47744 2549 97.5 0.143 0.141 0.157 0.173 RANDOM 15.01
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] 0.08 -0.01 0.03 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.395 r_angle_other_deg 1.883 r_angle_refined_deg 1.712 r_symmetry_vdw_other 0.315 r_nbd_other 0.264 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.209 r_chiral_restr 0.208 r_xyhbond_nbd_refined 0.169 r_symmetry_vdw_refined 0.161
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.395 r_angle_other_deg 1.883 r_angle_refined_deg 1.712 r_symmetry_vdw_other 0.315 r_nbd_other 0.264 r_nbd_refined 0.216 r_symmetry_hbond_refined 0.209 r_chiral_restr 0.208 r_xyhbond_nbd_refined 0.169 r_symmetry_vdw_refined 0.161 r_nbtor_other 0.088 r_bond_refined_d 0.016 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined 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_it r_mcbond_other r_mcangle_it 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1900 Nucleic Acid Atoms Solvent Atoms 360 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling CNS phasing