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Cholinephosphotransferase in complex with CDP-choline and phosphatidylcholine
ELECTRON MICROSCOPY
Starting Model(s)
Initial Refinement Model(s)
Type
Source
Accession Code
Details
in silico model
AlphaFold
P17898
Refinement
RMS Deviations
Key
Refinement Restraint Deviation
f_dihedral_angle_d
13.454
f_angle_d
0.442
f_chiral_restr
0.039
f_plane_restr
0.004
f_bond_d
0.002
Sample
yCPT1
Sample Components
yCPT1
nanobody25
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
FEI VITROBOT MARK IV
Cryogen Name
ETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
971309
Reported Resolution (Å)
2.9
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type
POINT
Map-Model Fitting and Refinement
Id
1
Refinement Space
REAL
Refinement Protocol
FLEXIBLE FIT
Refinement Target
Cross-correlation coefficient
Overall B Value
Fitting Procedure
Details
Initial model fitting was done using a model superposition function into a 3D volume in Chimera and then Phenix.real_space_refine was used for flexibl ...
Initial model fitting was done using a model superposition function into a 3D volume in Chimera and then Phenix.real_space_refine was used for flexible fitting.