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Title:The structure of echovirus type 12 bound to a two-domain fragment of its cellular attachment protein decay-accelerating factor (CD 55).
Authors:Bhella D, Goodfellow IG, Roversi P, Pettigrew D, Chaudhry Y, Evans DJ, Lea SM
Sample:Echovirus type 12 bound to decay accelerating factor domains 3 and 4
Aggregation state:Icosahedral (16 angstroms resolution)
Red flagLatest update:2011-05-26
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Sample
Sample name: Echovirus type 12 bound to decay accelerating factor domains 3 and 4
Components:
ID Type Name Exp. MW (MDa) Oligomeric details Mutant Organism GO identifier InterPro identifier Virus identifier Details
1virusEchovirus type 12Echovirus type 12
2cellular-componentDecay accelerating factor domains 3 and 4MonomertrueHomo Sapiens
Experiment
Sample preparation:
pHSample conc.DetailsStainingSample support details
7.40.2 mg/mLPBS AProtein absorbed to grid, floated onto 20% ammonium molybdate (pH 7.4), blotted and plunged into liquid ethane400 mesh Quantifoils
Vitrification:
Cryogen nameHumidityTemp.Instr.MethodTime resolvedDetails
ETHANE% Kblot for 2 seconds, wait for 2 seconds plunge ms
Imaging:
MicroscopeVoltageIllumination modeImaging modeCsDefocus min.Defocus max.Nominal mag.Calibrated mag.Electron sourceDetectorDetector distanceAstigmatism
OTHER120 kVFLOOD BEAMBRIGHT FIELD3.4 mm300 nm2000 nm3000029200LAB6Kodak SO163 mmobjective astigmatism corrected at 200k x

Specimen holderHolder modelTilt min.Tilt max.Energy filterEnergy windowTemp.Temp. min.Temp. max.Beam tiltElectron doseOther detailsDate
side entryOTHER°° eV K K K mrad e/Å2MICROSCOPE JEOL 1200 EX with OXFORD INSTRUMENTS CRYO-TRANSFER STAGE
Processing
Software:EM3DR2, PFT2, CTFMIX
CTF correction:Merged individual particles from focal pairs
Resolution by author:16 Å
Resolution method:FSC at 0.5
Processing details:Particles were aligned using a model based strategy starting with a model derived from the crystallographic co-ordinates of EV-1, filtered to 16 Angstroms resolution. The program is called PFT (Polar Fourier Transform). The reconstructions were calculated using the EM3DR2 program which is based on the standard method of calculating icosahedral reconstructions as described by Crowther,'Fourier-Bessel'.
Unit cell:
Scanned images:
Num. imagesSampling sizeOD rangeQuant. bit numberOther detailsScanner
163.42 μm/pixel16linkImages scanned on a Dunvegan HiScanOTHER
Fitting:
PDBProtocolTarget crit.SoftwareB valueFitting spacePDB chainDetails
1UPN 3D crystal structure fitting details lodged with PDB 1UPN
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