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Structure of activin A in complex with an ActRIIB-Alk4 fusion reveal insight into activin receptor interactions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5K59 5K59, 5MAC, 2ARV experimental model PDB 5MAC 5K59, 5MAC, 2ARV experimental model PDB 2ARV 5K59, 5MAC, 2ARV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 17.7 mg/ml complex in 20 mM HEPES, 200 mM NaCl pH 7.5. 100 + 100 nl sitting drop in a MRC 3-well plate with reservoir 0.1 M Na cacodylate pH 6.5 and 17 % (w/v) PEG 4000).
Crystal Properties Matthews coefficient Solvent content 3.7 66.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.375 α = 90 b = 68.375 β = 90 c = 975.538 γ = 120
Symmetry Space Group P 61 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 EIGER X 16M 2020-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.9920 MAX IV BioMAX
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 3.26 49.25 99.9 0.317 0.054 0.999 11.7 35.3 23230
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.26 3.39 100 2.667 0.446 0.504 1.9
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 5K59, 5MAC, 2ARV 3.265 49.25 23004 1209 99.7 0.2362 0.2344 0.2313 0.2685 0.2587 RANDOM 112.97
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] 2.9125 2.9125 -5.825
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 20.35 t_omega_torsion 3.71 t_angle_deg 0.99 t_bond_d 0.008 t_dihedral_angle_d t_gen_planes t_it t_chiral_improper_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5614 Nucleic Acid Atoms Solvent Atoms 15 Heterogen Atoms 89
Software Software Software Name Purpose BUSTER refinement REFMAC refinement XDS data reduction Aimless data scaling MxCuBE data collection PHASER phasing