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Title:Full-length structure of the bacterial pKM101 type IV secretion system core complex
Authors:Rivera-Calzada A, Fronzes R, Savva CG, Chandran V, Lian PW, Laeremans T, Pardon E, Steyaert J, Remaut H, Waksman G, Orlova EV
Sample:traN/traO/traF complex encoded by pKM101
Method:Single particle reconstruction (12.4 angstroms resolution)
Related entries in frame:EMD-2233
Red flagLatest update:2013-04-24
Sample
Sample name: traN/traO/traF complex encoded by pKM101
Oligomeric state: 14
Experimental molecular weight of the sample: 1.1
Components:
ID Type Name Exp. MW (MDa) Theo. MW (MDa) Oligomeric details Recombinant expression Synthetic Organism UniProt identifier GO identifier InterPro identifier Virus identifier Details
1proteintraF0.0414-mertrueEscherichia coliIPR005498
2proteintraO0.0314-mertrueEscherichia coliIPR010258
3proteintraN0.00514-mertrueEscherichia coli
Experiment
Specimen state: Particle
Specimen preparation:
pHSpecimen conc.DetailsStainingSpecimen support details
85 mg/mL50 mM Tris-HCL, 200 mM NaCl, 10 mM LDAOlacey carbon grids
Vitrification:
Cryogen nameHumidityTemp.Instr.MethodTime resolvedDetails
ETHANE60%92 KNONEblot 3 seconds before plunging ms
Imaging:
MicroscopeVoltageIllumination modeImaging modeCsDefocus min.Defocus max.Nominal mag.Calibrated mag.Electron sourceDetectorDetector distanceAstigmatism
FEI TECNAI F20200 kVFLOOD BEAMBRIGHT FIELD2.1 mm1250 nm3500 nm6600068100FIELD EMISSION GUNGENERIC GATAN mm

Specimen holderHolder modelTilt min.Tilt max.Energy filterEnergy windowTemp.Temp. min.Temp. max.Beam tiltElectron doseOther detailsDate
Side entry liquid nitrogen-cooled cryo specimen holderGATAN LIQUID NITROGEN°° eV95 K K K mrad20 e/Å24000x4000 CCD01-JAN-2008
Processing
Protocol:common lines
Software:imagic
CTF correction:phase flipping, each CCD image
Number of particles:3805
Number of class averages:800
Resolution by author:12.4 Å
Resolution method:FSC 0.5
Processing details:Final map were calculated from 3805 particles. Particles picked with BOXER (EMAN).
Scanned images:
Num. imagesSampling sizeOD rangeQuant. bit numberOther detailsScanner
42015 μm/pixel8
Fitting:
PDBProtocolTarget crit.SoftwareB valueFitting spacePDB chainDetails
3JQO rigid bodyCorrelationChimera, SitusREALProtocol: Rigid body