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Crystal structure of the zebrafish FoxH1 bound to the TGTTTATT site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7YZ7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 277 20% PEG Smear High (mix of PEG 6000, PEG 8000, PEG 10000), 0.1 M sodium acetate pH 4.5
Crystal Properties Matthews coefficient Solvent content 2.84 56.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.183 α = 90 b = 96.557 β = 90 c = 153.812 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 PIXEL DECTRIS PILATUS 6M 2019-09-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97918 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) CC (Half) 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 2.17 76.91 82.5 0.055 0.995 7.9 6.3 12168
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.172 2.336 44.7 0.488 0.552
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 7yz7 2.17 76.91 11564 604 82.51 0.21202 0.21039 0.2217 0.24136 0.2541 RANDOM 59.2
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] 1.34 -0.74 -0.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.902 r_dihedral_angle_4_deg 17.876 r_dihedral_angle_3_deg 13.648 r_dihedral_angle_1_deg 5.408 r_long_range_B_refined 4.456 r_long_range_B_other 4.45 r_scangle_other 2.698 r_mcangle_it 2.526 r_mcangle_other 2.524 r_scbond_it 1.783
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.902 r_dihedral_angle_4_deg 17.876 r_dihedral_angle_3_deg 13.648 r_dihedral_angle_1_deg 5.408 r_long_range_B_refined 4.456 r_long_range_B_other 4.45 r_scangle_other 2.698 r_mcangle_it 2.526 r_mcangle_other 2.524 r_scbond_it 1.783 r_scbond_other 1.783 r_mcbond_it 1.666 r_mcbond_other 1.637 r_angle_refined_deg 1.233 r_angle_other_deg 1.223 r_chiral_restr 0.071 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 955 Nucleic Acid Atoms 650 Solvent Atoms 38 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction Aimless data scaling REFMAC phasing