Skip to main content

 9EUT | pdb_00009eut

Cryo-EM structure of the full-length Pseudomonas aeruginosa bacteriophytochrome in its Pr state


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
in silico modelAlphaFold 
Sample
Homodimeric complex of the protein bacteriophytochrome containing its cofactor biliverdin
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification DetailsBlotting for 5 s from both sides
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles889461
Reported Resolution (Å)2.95
Resolution MethodFSC 0.143 CUT-OFF
Other DetailsFinal map is a composite, input map 1 has a reported resolution of 2.95 A, map 2 has a reported resolution of 4.31 A
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å**2)50
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)800
Maximum Defocus (nm)2000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification105000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcryoSPARCv4.2.1
IMAGE ACQUISITIONEPUv3.5.0
CTF CORRECTIONcryoSPARCv4.2.1
MODEL FITTINGISOLDE1.5
INITIAL EULER ASSIGNMENTcryoSPARCv4.2.1
RECONSTRUCTIONcryoSPARCv4.2.1
MODEL REFINEMENTPHENIX
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
NONE