6AB6

Cryo-EM structure of T=3 Penaeus vannamei nodavirus

Summary for 6AB6

EMDB information9576 6999
DescriptorCapsid protein, CALCIUM ION (2 entities in total)
Functional Keywordsnodaviridae, shrimp nodavirus, virus like particle
Biological sourcePenaeus vannamei nodavirus
Total number of polymer chains3
Total molecular weight121026.97
Authors
Chen, N.C.,Miyazaki, N.,Yoshimura, M.,Guan, H.H.,Lin, C.C.,Iwasaki, K.,Chen, C.J. (deposition date: 2018-07-20, release date: 2019-03-20)
Primary citation
Chen, N.C.,Yoshimura, M.,Miyazaki, N.,Guan, H.H.,Chuankhayan, P.,Lin, C.C.,Chen, S.K.,Lin, P.J.,Huang, Y.C.,Iwasaki, K.,Nakagawa, A.,Chan, S.I.,Chen, C.J.
The atomic structures of shrimp nodaviruses reveal new dimeric spike structures and particle polymorphism.
Commun Biol, 2:72-72, 2019
PubMed: 30820467 (PDB entries with the same primary citation)
DOI: 10.1038/s42003-019-0311-z
MImport into Mendeley
Experimental method
ELECTRON MICROSCOPY
?

Structure validation

ClashscoreRamachandran outliersSidechain outliers50 1.6%MetricValuePercentile RanksWorseBetterPercentile relative to all structuresPercentile relative to all EM structures

More Asymmetric unit images

Molmil generated image of 6ab6
no rotation
Molmil generated image of 6ab6
rotated about x axis by 90°
Molmil generated image of 6ab6
rotated about y axis by 90°

More Biological unit images

Molmil generated image of 6ab6
no rotation
Molmil generated image of 6ab6
rotated about x axis by 90°
Molmil generated image of 6ab6
rotated about y axis by 90°
(*)In the case of coarse surface representation, the asymmetric unit is shown as red ribbon representation.
Coordinate files for Biological unit (6ab6.pdb1.gz [7.65 MB])