Element:Sinbad

From The Gypsy Database

Description

Sinbad is a LTR retrotransposon characterized in Schistosoma mansoni (Copeland et al. 2005) and also present in S. haematobium (Copeland et al. 2006). About 50 copies of this element appear to reside in the S. mansoni genome. The term Sinbad term derives from the legendary mariner-explorer Sinbad protagonist of the classical Persian/Arabic tales "1001 Arabian Nights" (Sinbad traveled through near Eastern countries where schistosomiasis disease remains endemic even today). Sinbad gives the name and belongs to Sinbad clade (Copeland et al. 2005).

The genome structure of Sinbad is about 6.3 Kb in size, includes LTRs of 386 nt long and encodes for a single ORF. Although the internal coding region is disrupted by several stop codons and frameshiftings, the distinct gag and pol domains typical of LTR retrotransposons are clearly evident in the sequence of Sinbad (Copeland et al. 2005). The figure below shows an idealized consensus structure.

Structure

Sinbad.png


Figure not to scale. If present, long terminal repeats (LTRs) have been highlighted in blue. Amino acid motifs noted with lines indicate the conserved residues in each protein domain, abbreviations below mean:

MA=matrix PR=protease DU or DUT=dUTPase TM=transmembrane TAV or IBMP=transactivator/viroplasmin or inclusion body matrix protein
CA=capsid RT=reverse transcriptase INT=Integrase CHR=chromodomain
NC=nucleocapsid RH=RNaseH SU=surface MOV=movement protein
PPT=polypurine tract PBS=primer binding site ATF=aphid transmission factor VAP=virion associated protein

Related literature

Genbank accession:46142833
Clade:Sinbad
Cluster or genus:Undetermined
Branch or class:Branch 2
Family:Bel/Pao
System:LTR retroelements
Host:
Explore the Tree Life Project
Schistosoma mansoni.png
Schistosoma mansoni
Courtesy of Stephen J. Davies, Uniformed Services University
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