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SMAD4 MH2, residues 272-552
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YGS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 25% PEG Smear Broad (mixture of PEG 400, 550 MME, 600, 1000, 2000, 3350, 4000, 5000 MME, 6000, 8000, and 10000), 0.2 M lithium sulfate, 0.1 M HEPES pH 7.2
200 nL sample + 100 nL precipitant solution
Crystal Properties Matthews coefficient Solvent content 2.56 51.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.863 α = 90 b = 140.863 β = 90 c = 191.951 γ = 90
Symmetry Space Group I 41 2 2
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 2021-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.979 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.03 99.605 89.8 0.995 10.3 7.9 52111 36.58
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.034 2.151 41.1 0.484 1.6 8.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.03 99.6 1.34 52098 2613 84.1 0.1914 0.1902 0.1938 0.2131 0.2156 47.31
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.1637 f_angle_d 0.8349 f_chiral_restr 0.0536 f_plane_restr 0.0126 f_bond_d 0.0085
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5307 Nucleic Acid Atoms Solvent Atoms 225 Heterogen Atoms 98
Software Software Software Name Purpose autoPROC data reduction XDS data reduction Aimless data scaling STARANISO data scaling PHASER phasing PHENIX refinement