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Title:Electron cryomicroscopy and bioinformatics suggest protein fold models for rice dwarf virus.
Authors:Zhou ZH, Baker ML, Jiang W, Dougherty M, Jakana J, Dong G, Lu G, Chiu W
Sample:Rice Dwarf Virus
Aggregation state:Icosahedral (6.8 angstroms resolution)
Red flagLatest update:2011-08-31
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bullet_white.gif  Summary
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bullet.png Experimental details
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Sample
Sample name: Rice Dwarf Virus
Theoretical molecular weight of the sample: 50
Components:
ID Type Name Exp. MW (MDa) Oligomeric details Mutant Organism GO identifier InterPro identifier Virus identifier Details
1virusRice Dwarf VirusRice Dwarf Virus60.0.8.0.002
Experiment
Sample preparation:
pHSample conc.DetailsStainingSample support details
mg/mL
Vitrification:
Cryogen nameHumidityTemp.Instr.MethodTime resolvedDetails
ETHANE27%111 Kmanual ms
Imaging:
MicroscopeVoltageIllumination modeImaging modeCsDefocus min.Defocus max.Nominal mag.Calibrated mag.Electron sourceDetectorDetector distanceAstigmatism
OTHER400 kVFLOOD BEAMBRIGHT FIELD4.1 mm300 nm2200 nm5000049495LAB6Kodak SO163 film200 mm

Specimen holderHolder modelTilt min.Tilt max.Energy filterEnergy windowTemp.Temp. min.Temp. max.Beam tiltElectron doseOther detailsDate
GatanGATAN LIQUID NITROGEN°° eV109 K K K mrad13 e/Å2Microscope:JEOL 40001999-01-01
Processing
Software:MRC,IMRS
CTF correction:per micrograph
Resolution by author:6.8 Å
Resolution method:FSC at 0.5
Unit cell:
Scanned images:
Num. imagesSampling sizeOD rangeQuant. bit numberOther detailsScanner
16214 μm/pixel12linkZEISS SCAI
Fitting:
PDBProtocolTarget crit.SoftwareB valueFitting spacePDB chainDetails
2BTV Foldhunter100FOLDHUNTER is decribed in Jiang et al , J.Mol.Biol., 308, 1033-1044 (2001). Beta sheet domain BTV VP7 blurred to 7 angstroms using the program PDB2MRC (Ludtke et at, J.Struct.Biol.,128, 82-97 (1999).
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