REL RCSB RCSB RCSB 2012-08-20 2012-09-26 2012-09-26 2012-09-26 Cryo-EM reconstruction of Coxsackievirus B3 strain RD complexed with receptor DAF Yoder JD Cifuente JO Pan J Bergelson JM Hafenstein S coxsackievirus, enterovirus, picornavirus, receptor, DAF, Yoder JD Cifuente JO Pan J Bergelson JM Hafenstein S The crystal structure of a coxsackievirus B3-RD variant and a refined 9-angstrom cryo-electron microscopy reconstruction of the virus complexed with decay-accelerating factor (DAF) provide a new footprint of DAF on the virus surface. J.VIROL. 86 12571 12581 2012 22973031 doi:10.1128/JVI.01592-12 3j24 FULLOVERLAP Coxsackievirus B3 strain RD (CVB3-RD), complexed with decay-accelerating factor (DAF) Coxsackievirus B3 strain RD (CVB3-RD), complexed with decay-accelerating factor (DAF)
One DAF binds each binding site (one per CVB3-RD protomer).
One receptor per virus protomer 2 7 Human coxsackievirus B3 Human coxsackievirus B3 Homo sapiens VERTEBRATES 7 300 1 VIRION STRAIN false false decay-accelerating factor Homo sapiens human 60 true Escherichia coli singleParticle particle 2.0 6.0
50mM MES
Quantifoil
 ETHANE 120 HOMEMADE PLUNGER Blot before plunging FEI/PHILIPS CM300FEG/T FLOOD BEAM BRIGHT FIELD TUNGSTEN HAIRPIN 300 2.0 1.0 4.6 45000.0 47000.0 GATAN LIQUID NITROGEN 83 93 Lens astigmatism was corrected at 98,000 times magnification 0 2004-08-06 KODAK SO-163 FILM ZEISS SCAI 36 24
scanned at 7 microns and bin-averaged to 14
1.0 8. Side mounted nitrogen cooled
Using the program Robem, particles were picked from 36 of the highest quality micrographs with a selection area sized to 171x171 pixels and preprocessed using program autopp to remove blemishes, linearize, normalize, and apodize. To correct for contrast transfer function, defocus and astigmatism values were assessed from the digitized images using the program ctffind3.
AUTO3DEM
 OTHER 9.0 FSC 0.5 CUT-OFF AUTO3DEM, CTFFIND, autopp, Robem 3010 emd_5475.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 171 171 171 -85 -85 -85 171 171 171 502.74002 502.74002 502.74002 90.0 90.0 90.0 X Y Z -1.91342664 6.09509516 -0.00000001 1.0 2.94 2.94 2.94 0.6 AUTHOR Cryo-electron microscopy reconstruction of Coxsackievirus B3 strain RD complexed with decay accelerating factor SCR1-4
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 1OJW B RIGID BODY FIT Chimera
Protocol: Rigid body
average map value REAL