{PDOC00480}
{PS00555; ICOSAH_VIR_COAT_S}
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* Plant viruses icosahedral capsid proteins 'S' region signature *
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The capsid protein of plant  icosahedral positive strand RNA viruses generally
consists of four distinct domains: an N-terminal positively charged 'R' domain
involved in the  interaction with RNA,  a connecting arm 'a', a central domain
'S' forming the virion shell, and a C-terminal projecting 'P' domain.  Some of
the viruses lack either the R or P domains.

It has been shown [1] that the S domain  of the  capsid protein of a number of
plant viruses are evolutionary related, namely:

 - Carmoviruses: carnation mottle  virus (CarMV),  melon  necrotic  spot virus
   (MNSV), and turnip crinkle virus (TCV).
 - Dianthoviruses: red clover necrotic mosaic virus (RCNMV).
 - Sobemoviruses: maize  chlorotic  mottle  virus  (MCMV),  and  southern bean
   mosaic virus (SBMV).
 - Tombusviruses: artichoke mottled  crinkle virus (AMCV),  cucumber  necrosis
   virus (CNV), cymbidium ringspot virus (CyRSV), and tomato bushy stunt virus
   (TBSV).
 - Tobacco necrosis virus (TNV).

The S domain of these viruses  contains  from 158  to  166 amino acids  and is
composed of eight beta-strand anti-parallel twisted sheets in what is known as
a 'jellyroll' conformation.  The  signature  pattern for this domain starts at
the C-terminal  part of the 3rd  beta-strand  and extends up to the end of the
4th strand.

-Consensus pattern: [FYW]-x-[PSTA]-x(7)-G-x-[LIVM]-x-[LIVM]-x-[FYWI]-x(2)-D-
                    x(5)-P
-Sequences known to belong to this class detected by the pattern: ALL.
-Other sequence(s) detected in Swiss-Prot: NONE.

-Expert(s) to contact by email:
           Koonin E.V.; koonin@ncbi.nlm.nih.gov

-Last update: November 1997 / Pattern and text revised.

[ 1] Dolja V.V., Koonin E.V.
     "Phylogeny of capsid proteins of small icosahedral RNA plant
     viruses."
     J. Gen. Virol. 72:1481-1486(1991).
     PubMed=1856686

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