Quasirandom structure and function guided synthesis methods
First Claim
1. A method for synthesising at least one bifunctional molecule comprising a molecule part linked to a nucleic acid part, comprising the steps ofi) providing at least 2 connector polynucleotides each capable of hybridizing to at least 1 complementary connector polynucleotide,ii) providing at least 2 complementary connector polynucleotides each capable of hybridizing to at least 1 connector polynucleotide,iii) hybridizing at least 2 complementary connector polynucleotides to at least 2 connector polynucleotides to form the nucleic acid part as a hybridization complex, wherein at least 2 of said complementary connector polynucleotides comprise at least 1 functional entity, wherein at least 1 of said complementary connector polynucleotides hybridizes to at least 2 connector polynucleotides, and with the proviso that no single complementary connector or connector polynucleotide of the hybridization complex hybridizes to all of the remaining complementary connector or connector polynucleotides of the hybridization complex;
- iv) covalently reacting at least 2 functional entities, wherein the covalent reaction of the functional entities results in the formation of a molecule of the molecule part, wherein the functional entities are provided by separate complementary connector polynucleotides,thereby providing the at least one bifunctional molecule wherein the nucleic acid part of the bifunctional molecule comprises nucleotide sequences that identify the functional entities that covalently reacted to form the molecule comprised within the bifunctional molecule.
1 Assignment
0 Petitions
Accused Products
Abstract
The present invention is directed to the synthesis of molecules guided by connector polynucleotides (CPNs) capable of hybridizing to complementary connector polynucleotides (CCPNs) harboring at least one functional entity comprising at least one reactive group. At least one of the CCPNs is capable of hybridizing to at least two CPNs. Each CPN will “call” for one or more CCPNs capable of hybridization to the CPN. Following the formation of a supramolecular hybridization complex comprising a plurality of CPNs and a plurality of CCPNs, the reaction of reactive groups results in the formation of a molecule comprising covalently linked functional entities. The formation of the molecule involves the transfer of functional entities from one or more “donor CCPNs” to at least one “acceptor CCPN” with which the transferred functional entities were not associated prior to the transfer.
-
Citations
133 Claims
-
1. A method for synthesising at least one bifunctional molecule comprising a molecule part linked to a nucleic acid part, comprising the steps of
i) providing at least 2 connector polynucleotides each capable of hybridizing to at least 1 complementary connector polynucleotide, ii) providing at least 2 complementary connector polynucleotides each capable of hybridizing to at least 1 connector polynucleotide, iii) hybridizing at least 2 complementary connector polynucleotides to at least 2 connector polynucleotides to form the nucleic acid part as a hybridization complex, wherein at least 2 of said complementary connector polynucleotides comprise at least 1 functional entity, wherein at least 1 of said complementary connector polynucleotides hybridizes to at least 2 connector polynucleotides, and with the proviso that no single complementary connector or connector polynucleotide of the hybridization complex hybridizes to all of the remaining complementary connector or connector polynucleotides of the hybridization complex; iv) covalently reacting at least 2 functional entities, wherein the covalent reaction of the functional entities results in the formation of a molecule of the molecule part, wherein the functional entities are provided by separate complementary connector polynucleotides, thereby providing the at least one bifunctional molecule wherein the nucleic acid part of the bifunctional molecule comprises nucleotide sequences that identify the functional entities that covalently reacted to form the molecule comprised within the bifunctional molecule. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58)
-
59. A method for synthesising a plurality of different bifunctional molecules each comprising a molecule part linked to a nucleic acid part, the method comprising the steps of:
-
i) providing a plurality of connector polynucleotides each capable of hybridizing to at least 1 complementary connector polynucleotide, ii) providing a plurality of complementary connector polynucleotides each capable of hybridizing to at least 1 connector polynucleotide, iii) hybridizing the plurality of connector polynucleotides and complementary connector polynucleotides, thereby forming a plurality of different nucleic acid parts as hybridisation complexes, each hybridisation complex comprising at least 2 complementary connector polynucleotides and at least 2 connector polynucleotides, wherein, for each of said hybridisation complexes, at least 2 of said complementary connector polynucleotides comprise at least 1 functional entity, and at least 1 of said complementary connector polynucleotides hybridizes to at least 2 connector polynucleotides, and with the proviso that no single complementary connector or connector polynucleotide of the hybridisation complex hybridizes to all of the remaining complementary connector or connector polynucleotides of the hybridisation complex, iv) reacting at least 2 functional entities of each hybridisation complex, wherein, for each hybridisation complex, the reaction of the functional entities results in the formation of a different molecule part comprising a different molecule by covalently linking at least 2 functional entities provided by separate complementary connector polynucleotides, thereby providing a plurality of different bifunctional molecules wherein the nucleic acid part of each bifunctional molecule comprises nucleotide sequences that identify the functional entities that covalently reacted to form the molecule comprised within the molecule part. - View Dependent Claims (60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75)
-
-
76. A bifunctional molecule comprising a molecule part linked to a nucleic acid part, wherein
the molecule part comprises a molecule formed from the covalent reaction of two or more different functional entities, wherein the nucleic acid part comprises a hybridization complex formed by the hybridization between at least two connector polynucleotides and at least two complimentary connector polynucleotides and wherein the nucleic acid part comprises nucleotide sequences that identify the different functional entities that reacted to form the molecule, wherein at least two of the connector polynucleotides are linked to the molecule part, wherein at least one of the connector polynucleotides linked to the molecule part hybridizes to at least two complementary connector polynucleotides, and with the proviso that no single connector or complementary connector polynucleotide of the hybridization complex hybridizes to all of the remaining connector or complementary connector polynucleotides of the hybridization complex.
-
108. A method for synthesising at least one bifunctional molecule comprising a molecule part linked to a nucleic acid part, said method comprising the steps of
i) providing at least 4 building block polynucleotides each capable of hybridizing to at least 1 other building block polynucleotide and wherein at least two of said building block polynucleotides comprise at least one functional entity, a) b) c) ii) forming the nucleic acid part as a hybridization complex comprising the at least 4 building block polynucleotides, wherein at least 2 of said building block polynucleotides comprise at least 1 functional entity, wherein at least 1 of said building block polynucleotide hybridizes to at least 2 other building block polynucleotides, and with the proviso that no single building block polynucleotide of the hybridization complex hybridizes to all of the remaining building block polynucleotides of the hybridization complex, iii) synthesising a molecule of the molecule part by covalently reacting the at least 2 functional entities; thereby providing the at least one bifunctional molecule wherein the nucleic acid part of the bifunctional molecule comprises nucleotide sequences that identify the functional entities that covalently reacted to form the molecule of that bifunctional molecule. - View Dependent Claims (109, 110, 111, 112, 113, 114)
-
115. A method for synthesising a plurality of different bifunctional molecules each comprising a molecule part linked to a nucleic acid part, said method comprising the steps of
i) providing a plurality of at least 1000 different building block polynucleotides each comprising at least one functional entity, ii) selecting or providing from said plurality of building block polynucleotides, n different building block polynucleotides for the synthesis of a different molecule of the molecule part, wherein n is an integer of at least 4 and less than 200, iii) optionally further providing a plurality of building block polynucleotides selected from the group consisting of building block polynucleotides comprising at least 1 functional entity and building block polynucleotides having no functional entity, iv) hybridizing at least the selected or provided n building block polynucleotides to form the nucleic acid part as a hybridization complex, wherein at least n of said building block polynucleotides comprise at least 1 functional entity, wherein at least 1 of said building block polynucleotides hybridizes to at least 2 other building block polynucleotides, with the proviso that no single building block polynucleotide hybridizes to the remaining n− - 1 building block polynucleotides, and
v) covalently reacting the at least n functional entities, wherein the covalent reaction of said functional entities provided by separate building block polynucleotides results in the formation of at least one molecule, wherein the at least one molecule is linked to at least one building block polynucleotide, and repeating the steps ii) to v) for different selections or provisions of building block polynucleotides each comprising at least one functional entity, thereby generating a plurality of different bifunctional molecules wherein the nucleic acid part of the bifunctional molecule comprises nucleotide sequences that identify the functional entities that covalently reacted to form the molecule of that bifunctional molecule. - View Dependent Claims (116, 117)
- 1 building block polynucleotides, and
-
118. A bifunctional molecule comprising a molecule part linked to a nucleic acid part, wherein
the molecule part comprises a molecule formed by a covalent reaction of different functional entities, and wherein the nucleic acid part comprises a hybridization complex of at least four building block polynucleotides, each building block polynucleotide comprising a nucleotide sequence that identifies a functional entity that reacted to form the molecule, wherein at least two of the building block polynucleotides hybridize to at least two of the other building block polynucleotides, wherein the building block polynucleotides are not linked by covalent bonds when the functional entities have reacted to form the molecule of the molecule part, and wherein the reacted functional entities are not all linked by, or do not all form, phosphodiester bonds, with the proviso that no single building block polynucleotide of the hybridization complex hybridizes to all of the remaining building block polynucleotides of the hybridization complex.
-
122. A bifunctional molecule comprising a single molecule part linked to a nucleic acid part, wherein
the molecule part comprises a molecule formed by a covalent reaction of different functional entities, and wherein the nucleic acid part comprises a hybridization complex of at least two connector polynucleotides hybridized to at least two complementary connector polynucleotides and wherein the nucleic acid part comprises nucleotide sequences that identify the different functional entities that reacted to form the molecule, wherein at least one connector polynucleotide hybridizes to two complementary connector polynucleotides and wherein at least one complementary connector polynucleotide hybridizes to two connector polynucleotides, wherein said connector polynucleotides are not linked by covalent bonds when the functional entities have reacted to form the molecule of the molecule part, wherein the molecule part is covalently linked to at least one complimentary connector polynucleotide of the nucleic acid part, and wherein the reacted functional entities are not all linked by, or do not all form, phosphodiester bonds, with the proviso that no single connector or complimentary connector polynucleotide of the hybridization complex hybridizes to all of the remaining connector or complimentary connector polynucleotides of the hybridization complex.
-
123. A bifunctional molecule comprising a molecule part linked to a nucleic acid part, wherein
the molecule part comprises a molecule formed by a covalent reaction of different functional entities, and wherein the nucleic acid part comprises a hybridization complex of at least two connector polynucleotides hybridized to at least two complementary connector polynucleotides and wherein the nucleic acid part comprises nucleotide sequences that identify the different functional entities that reacted to form the molecule, wherein at least one connector polynucleotide hybridizes to two complementary connector polynucleotides and wherein at least one complementary connector polynucleotide hybridizes to two connector polynucleotides, wherein said complementary connector polynucleotides are not linked by covalent bonds when the functional entities have reacted to form the molecule of the molecule part, wherein the molecule part is covalently linked to at least one connector polynucleotide or complimentary connector polynucleotide of the nucleic acid part, and wherein the reacted functional entities are not all linked by, or do not all form, phosphodiester bonds, with the proviso that no single connector or complimentary connector polynucleotide of the hybridization complex hybridizes to all of the remaining connector or complimentary connector polynucleotides of the hybridization complex.
-
127. A bifunctional molecule comprising a molecule part linked to a nucleic acid part, wherein
the molecule part comprises a molecule formed by a covalent reaction of different functional entities, and wherein the nucleic acid part comprises a hybridization complex of at least two connector polynucleotides hybridized to at least two complementary connector polynucleotides and wherein the nucleic acid part comprises nucleotide sequences that identify the different functional entities that reacted to form the molecule, wherein at least one connector polynucleotide hybridizes to two complementary connector polynucleotides and wherein at least one complementary connector polynucleotide hybridizes to two connector polynucleotides, wherein the molecule part is covalently linked to at least one connector polynucleotide or complimentary connector polynucleotide of the nucleic acid part, wherein said connector polynucleotides and said complementary connector polynucleotides are not linked by covalent bonds when the functional entities have reacted to form the molecule of the molecule part, and wherein the reacted functional entities are not all linked by, or do not all form, phosphodiester bonds, with the proviso that no single connector or complimentary connector polynucleotide of the hybridization complex hybridizes to all of the remaining connector or complimentary connector polynucleotides of the hybridization complex.
-
131. A bifunctional molecule comprising a molecule part linked to a nucleic acid part, wherein
the molecule part comprises a molecule formed by a covalent reaction of different functional entities, wherein the nucleic acid part comprises a hybridization complex of at least four building block polynucleotides, and wherein the nucleic acid part comprises nucleotide sequences that identify the different functional entities that reacted to form the molecule, wherein at least two of said building block polynucleotides comprise at least one functional entity, the reaction of the reactive groups resulting in the formation of the molecule part; wherein at least one of the building block polynucleotides comprising the at least one functional entity hybridizes to at least two other building block polynucleotides, and with the proviso that no single building block polynucleotide of the hybridization complex hybridizes to all of the remaining building block polynucleotides. - View Dependent Claims (132, 133)
Specification