In situ subtomogram average of the transition zone doublet microtubule in human airway cilia (composite map)
ELECTRON MICROSCOPY
Sample
Transition zone DMT with MIPs repeat every 8 nm
Specimen Preparation
Sample Aggregation State
CELL
Vitrification Instrument
Cryogen Name
ETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction Method
SUBTOMOGRAM AVERAGING
Number of Particles
33196
Reported Resolution (Å)
7.3
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type
POINT
Map-Model Fitting and Refinement
Id
1
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Atomic models were built in Coot. CFAP20 and tubulin models were obtained from PDB: 7UNG and fit as rigid-bodies into the subtomogram average. All oth ...
Atomic models were built in Coot. CFAP20 and tubulin models were obtained from PDB: 7UNG and fit as rigid-bodies into the subtomogram average. All other proteins were modeled using AlphaFold3 or Boltz-2 and fit into the density either manually or using DomainSeeker. Initial atomic models were refined into the subtomogram averaging map using rigid-body refinement in phenix.real_space_refine. Geometry outliers were corrected manually in Coot. Final refinement was performed in Phenix using group atomic displacement parameter (ADP) refinement against the subtomogram averages. Side-chain density is not resolved at this resolution, and the model is intended to describe subunit and domain placement rather than atomic-accuracy contacts. The side-chain conformations in the deposited file were inherited from the reference models used to build it rather than determined from our density and should not be interpreted as experimentally determined. The reported contacts trace to a small number of systematic sources rather than many independent modeling errors.
