Appeal No. 1998-2648
Application No. 08/473,888
1. An oligonucleotide containing a backbone having a polarity
associated therewith, and nucleotide bases and at least one synthetic residue
bound to the backbone, the bases and residue(s) of said oligonucleotide being
effective to bind in a sequence-specific manner to a target sequence of a duplex
polynucleotide, said oligonucleotide capable of binding in a parallel orientation
relative to a purine-rich or designated core or center strand of said duplex, said
nucleotide bases consisting essentially of pyrimidine bases and/or base analogs
thereof, and said residue(s) being substantially planar, such that when the
oligonucleotide binds to the target sequence, base triplets are formed among
each oligonucleotide base or residue and the corresponding bases of the duplex
with at least one residue binding to an inverted base pair, and each residue
conforms to the following parameters:
a) the radius of the imaginary circle connecting the C1’ ends of the two
glycosyl bonds of the target base pair of the duplex polynucleotide and
the atom of the oligonucleotide backbone which is linked to the
corresponding residue of the oligonucleotide is from about 7.0 Å to
about 8.6 Å;
b) the [.Theta] value, measured from the C1’ atom bound to the base in the
core or center strand, to the atom of the oligonucleotide backbone
which is bound to the residue, is from about 53° to about 82°
c) the [.zeta] value indicating the angle between said imaginary circle radius
passing through the atom of the residue which is bound to the
oligonucleotide backbone, and the bond vector between the residue
and the oligonucleotide backbone, is from –90° to about +90°; and
d) the residue forms a total of at least two hydrogen bonds with one or
both bases of the corresponding target base pair of the duplex.
The examiner relies on the following reference:
Toole WO 92/10590 June 25, 1992
Claims 2-5 and 11-14 sta nd rejected under 35 U.S.C. § 112, first
paragraph, as unsupported by an adequate written description.
Claims 1-14 stand rejected under 35 U.S.C. § 112, second paragraph, as
indefinite.
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