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Title:Three-dimensional structure of bacteriophage T4 baseplate.
Authors:Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, vanRaaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG
Sample:Bacteriophage T4 baseplate-tail tube assembly
Method:Single particle reconstruction (12.0 angstroms resolution)
Red flagLatest update:2012-10-24
Sample
Sample name: Bacteriophage T4 baseplate-tail tube assembly
Oligomeric state: the complex has sixfold symmetry
Components:
ID Type Name Exp. MW (MDa) Oligomeric details Recombinant expression Synthetic Organism UniProt identifier GO identifier InterPro identifier Virus identifier Details
1proteinbaseplate-tail tube complextrueEnterobacteria phage T4
Experiment
Specimen state: Particle
Specimen preparation:
pHSpecimen conc.DetailsStainingSpecimen support details
75 mg/mLwaterholey carbon
Vitrification:
Cryogen nameHumidityTemp.Instr.MethodTime resolvedDetails
ETHANE% KBlot for 2 seconds before plunging ms
Imaging:
MicroscopeVoltageIllumination modeImaging modeCsDefocus min.Defocus max.Nominal mag.Calibrated mag.Electron sourceDetectorDetector distanceAstigmatism
FEI/PHILIPS CM300FEG/T300 kVFLOOD BEAMBRIGHT FIELD2 mm1200 nm5000 nm4500047000FIELD EMISSION GUNKODAK SO-163 FILM mm

Specimen holderHolder modelTilt min.Tilt max.Energy filterEnergy windowTemp.Temp. min.Temp. max.Beam tiltElectron doseOther detailsDate
626 Single Tilt Cryotransfer SystemGATAN LIQUID NITROGEN eV K K K mrad25 e/Å22001-01-30
Processing
Protocol:model based projection matching
Software:SPIDER
CTF correction:each particle
Number of particles:945
Imposed symmetry:C6
Resolution by author:12.0 Å
Resolution method:FSC 0.5
Processing details:Modified SPIDER version was used to allow reconstruction of the whole baseplate-tail tube assembly.
Scanned images:
Num. imagesSampling sizeOD rangeQuant. bit numberOther detailsScanner
1514 μm/pixel8images were scanned at 7 micron per pixel and averaged 2x2 to give 14 micron per pixelZEISS SCAI
Fitting:
PDBProtocolTarget crit.SoftwareB valueFitting spacePDB chainDetails
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space
rigid bodycorrelation coefficientSitus 2.0, ColoresREALProtocol: laplacian filtered real space