Table 1.

Template specificity of the SIN P123C>S+ nsP4 replicase in vitro

TemplateaLength(s) in basesb3′-terminal sequence or structurecFunctional templated
JNTSCATX2,957UUCA37gggaauuccucga+++
JNTSCATX(+)2,941UUCA34 +++
JNTSCATX(−)2,943AUAUCCG
Poly(A)VariousAn
Poly(A):oligo(U)VariousDuplex
HCVΔpoly(A)3,728GGCCUA26uua
HCVΔpoly(U)3,750UCCCCU37
YF5′3′IV4,861Hairpin + 3 bases
BMV3,234, 2,865, 2,114, 876tRNA-like
Toto110111,753UUCA37gggaauuccucga++
SP6-SF411,516UUCA70cuag+
VR27,762UUCA21ggguacgcggcc+/−
RR6411,891UUCA30cggaauucg+
Robo1029,783UAGA20
  • a All template RNAs were tested at a concentration of 20 ng/μl under standard reaction conditions. See Materials and Methods for explanation of the plasmids and nomenclature, linearization sites, and in vitro transcription conditions.

  • b Predicted or known lengths of RNAs tested.

  • c The 3′-terminal sequence or structure of each substrate RNA is indicated. For transcribed RNAs, sequences are predicted assuming complete transcription of the DNA template strand. Additional sequence after poly(A) or poly(U) tracts is shown in lowercase.

  • d Qualititative assessment of RNA transcript activity in the in vitro SIN replicase assay.