☰ Navigation Tabs
Structure of the FOXM1 DNA binding
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C6Y PDB ENTRY 2C6Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 24% PEG3350, 0.2M Sodium Malonate, pH7.5, 3uL Protein at 12g/L mixed with DNA at 0.5mM added tO 3uL of reservoir, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.1 60.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.07 α = 90 b = 119.75 β = 90 c = 152.97 γ = 90
Symmetry Space Group C 2 2 21
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 Q315r 2008-11-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.0723 ESRF ID23-1
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 2.2 76 91.4 0.058 16.1 5 27165 48.1
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 2.2 2.32 59.4 0.45 3.1 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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2C6Y 2.21 32.94 25545 1389 91.44 0.20557 0.204 0.23425 0.2935 RANDOM 19.23
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] 1.22 0.23 -1.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.395 r_dihedral_angle_4_deg 15.812 r_dihedral_angle_3_deg 13.639 r_dihedral_angle_1_deg 5.831 r_mcangle_it 1.782 r_scangle_it 1.545 r_angle_refined_deg 1.446 r_mcbond_it 1.059 r_scbond_it 0.965 r_angle_other_deg 0.922
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.395 r_dihedral_angle_4_deg 15.812 r_dihedral_angle_3_deg 13.639 r_dihedral_angle_1_deg 5.831 r_mcangle_it 1.782 r_scangle_it 1.545 r_angle_refined_deg 1.446 r_mcbond_it 1.059 r_scbond_it 0.965 r_angle_other_deg 0.922 r_mcbond_other 0.211 r_chiral_restr 0.066 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1560 Nucleic Acid Atoms 861 Solvent Atoms 163 Heterogen Atoms 2
Software Software Software Name Purpose DNA data collection AMoRE phasing REFMAC refinement MOSFLM data reduction SCALA data scaling