3ZBJ

Fitting results in the I-layer of the subnanometer structure of the bacterial pKM101 type IV secretion system core complex digested with elastase


ELECTRON MICROSCOPY
Sample
TRAN, TRAO AND TRAF COMPLEX ENCODED BY PKM101 DIGESTED WITH 0.02 MG ML- 1 OF ELASTASE FOR 40 MIN AT ROOM TEMPERATURE
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK III
Cryogen NameETHANE
Sample Vitrification DetailsVITRIFICATION 1 -- CRYOGEN- ETHANE, HUMIDITY- 100, TEMPERATURE- 92, INSTRUMENT- FEI VITROBOT MARK III, METHOD- BLOT 4 SECONDS BEFORE PLUNGING,
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles5430
Reported Resolution (Å)8.5
Resolution Method
Other DetailsSUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD -2233. (DEPOSITION ID: 11228).
Refinement Type
Symmetry TypePOINT
Point SymmetryC14
Map-Model Fitting and Refinement
Id1
Refinement SpaceREAL
Refinement ProtocolFLEXIBLE FIT
Refinement TargetCross-correlation coefficient
Overall B Value
Fitting Procedure
DetailsMETHOD--RIGID BODY FOLLOWED BY FLEXIBLE FITTING REFINEMENT PROTOCOL--MODELLED
Data Acquisition
Detector TypeGENERIC GATAN
Electron Dose (electrons/Å**2)20
Imaging Experiment1
Date of Experiment2012-01-11
Temperature (Kelvin)95
Microscope ModelFEI TECNAI 12
Minimum Defocus (nm)1500
Maximum Defocus (nm)3500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.1
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification66000
Calibrated Magnification68100
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)200
Imaging Details4000X4000 CCD
EM Software
TaskSoftware PackageVersion
MODEL FITTINGFlex-EM
MODEL FITTINGSculptor
MODEL FITTINGSitus
MODEL FITTINGUCSF Chimera
RECONSTRUCTIONIMAGIC
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING, EACH CCD IMAGE