Process for the cycloaddition of a halogenated 1,3-dipole compound with a (hetero)cycloalkyne
The present invention relates to a cycloaddition process comprising the step of reacting a halogenated aliphatic 1,3-dipole compound with a (hetero)cycloalkyne according to Formula (1): Preferably, the (hetero)cycloalkyne according to Formula (1) is a (hetero)cyclooctyne. The invention also relates to the cycloaddition products obtainable by the process according to the invention. The invention further relates to halogenated aliphatic 1,3-dipole compounds, in particular to halogenated aliphatic 1,3-dipole compounds comprising N-acetylgalactosamine-UDP (GalNAc-UDP), and to halogenated 1,3-dipole compounds comprising (peracylated) N-acetylglucosamine (GlcNAc), N-acetylgalactosamine (GalNAc), N-acetylmannosamine (ManNAc) and N-acetyl neuraminic acid (NeuNAc).
1. A process comprising reacting a halogenated 1,3-dipole compound with a (hetero)cyclooctyne,
wherein the halogenated 1,3-dipole compound is defined according to Formula (2):
Z—[C e (R 4 ) f (R 12 ) (2e-f) ]—(W) g -(L′) t (A′) u 2
wherein:
t is 1;
u is 1-4;
Z is a 1,3-dipole functional group;
L′ is a linker;
A′ is a glycoprotein or an, optionally substituted, saccharide moiety;
R 4 is independently selected from the group consisting of F, Cl, Br and I and —C y R 13 (2y+1) , wherein y is 1-6 and R 13 is selected from the group consisting of F, Cl, Br and I;
R 12 is independently selected from the group consisting of hydrogen, C 1 -C 24 alkyl groups, C 3 -C 24 cycloalkyl groups, C 2 -C 24 (hetero)aryl groups, C 3 -C 24 alkyl(hetero)aryl groups and C 3 -C 24 (hetero)arylalkyl groups, wherein the alkyl groups, cycloalkyl groups, (hetero)aryl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are optionally substituted, and wherein the alkyl groups, cycloalkyl groups, (hetero)aryl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are optionally interrupted by one or more heteroatoms selected from the group consisting of O, S and N;
e is 1-10;
f is 1-2e;
g is 0 or 1; and
W is selected from the group consisting of C 1 -C 24 alkylene groups, C 2 -C 24 alkenylene groups, C 3 -C 24 cycloalkylene groups, C 2 -C 24 (hetero)arylene groups, C 3 -C 24 alkyl(hetero)arylene groups and C 3 -C 24 (hetero)arylalkylene groups, wherein the alkylene groups, alkenylene groups, cycloalkylene groups, (hetero)arylene groups, alkyl(hetero)arylene groups and (hetero)arylalkylene groups are optionally substituted, and wherein the alkylene groups, alkenylene groups, cycloalkylene groups, (hetero)arylene groups, alkyl(hetero)arylene groups and (hetero)arylalkylene groups are optionally interrupted by one or more heteroatoms selected from the group consisting of O, S and N,
wherein the 1,3-dipole functional group is bonded to an sp 3 C-atom, and at least one of the one or more substituents R 4 is bonded to that same sp 3 C-atom;
and wherein the (hetero)cyclooctyne is according to Formula (1):
wherein:
a is 0, 1, 2, 3 or 4;
a′ is 0, 1, 2, 3 or 4;
a″ is 0, 1, 2, 3 or 4;
with the proviso that a+a′+a″=4;
n is 0-8;
R 1 is independently selected from the group consisting of oxo, halogen, —OR 2 , —NO 2 , —CN, —S(O) 2 R 2 , C 1 -C 24 alkyl groups, C 3 -C 24 cycloalkyl groups, C 2 -C 24 (hetero)aryl groups, C 3 -C 24 alkyl(hetero)aryl groups and C 3 -C 24 (hetero)arylalkyl groups, wherein the alkyl groups, cycloalkyl groups, (hetero)aryl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are optionally substituted, wherein the alkyl groups, cycloalkyl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are optionally interrupted by one or more heteroatoms selected from the group consisting of O, S and N, and wherein R2 is independently selected from the group consisting of hydrogen, halogen, C 1 -C 24 alkyl groups, C 3 -C 24 cycloalkyl groups, C 2 -C 24 (hetero)aryl groups, C 3 -C 24 alkyl(hetero)aryl groups and C 3 -C 24 (hetero)arylalkyl groups;
B and B′ are independently selected from the group consisting of O, S, C(O), NR 3 and C(R 3 ) 2 , wherein R 3 is independently selected from the group consisting of hydrogen, R 1 or (L) p -(A) r ;
optionally, when n is 2 or more, two R 1 groups may together form a (hetero)cycloalkyl group, the (hetero)cycloalkyl group optionally being substituted with an (L) p -(A) r substituent;
optionally, when n is 2 or more, two R 1 groups may together form a (hetero)aryl group, the (hetero)aryl group optionally being substituted with an (L) p -(A) r substituent;
p is 0 or 1;
r is 1-4;
L is a linker;
A is independently selected from the group consisting of D, E or Q, wherein D, E and Q are as defined below;
q is 0-4;
with the proviso that if q is 0, then B and/or B′ is NR 3 wherein R 3 is (L) p -(A) r , and/or B and/or B′ is C(R 3 ) 2 wherein one or more R 3 is (L) p -(A) r , and/or n is 2 or more and two R 1 groups together form a (hetero)cycloalkyl group wherein the (hetero)cycloalkyl group is substituted with an (L) p -(A) r substituent, and/or n is 2 or more and two R 1 groups together form a (hetero)aryl group wherein the (hetero)aryl group is substituted with an (L) p -(A) r substituent;
D is a molecule of interest;
E is a solid surface; and
Q is a functional group.
2. The process according to claim 1 , wherein the molecule of interest is selected from the group consisting of a reporter molecule, a diagnostic compound, an active substance, an enzyme, an amino acid, a (non-catalytic) protein, a peptide, a polypeptide, an oligonucleotide, a monosaccharide, an oligosaccharide, a polysaccharide, a glycan, a (poly)ethylene glycol diamine, a polyethylene glycol chain, a polyethylene oxide chain, a polypropylene glycol chain, a polypropylene oxide chain and a 1,x-diaminoalkane, wherein x is the number of carbon atoms in the alkane.
3. The process according to claim 1 , wherein the solid surface is selected from the group consisting of a functional surface, a nanomaterial, a carbon nanotube, a fullerene, a virus capsid, a metal surface, a metal alloy surface and a polymer surface.
4. The process according to claim 1 , wherein Q is a functional group independently selected from the group consisting of hydrogen, halogen, R 11 , —CH═C(R 11 ) 2 , —C═CR 11 , —[C(R 11 ) 2 C(R 11 ) 2 O] q R 11 wherein q is in the range of 1 to 200, —CN, —N 3 , —NCX, —XCN, —XR 11 , —N(R 11 ) 2 , -+N(R 11 ) 3 , —C(X)N(R 11 ) 2 , —C(R 11 ) 2 XR 11 , —C(X)R 11 , —C(X)XR 11 , —S(O)R 11 , —S(O) 2 R 11 , —S(O)OR 11 , —S(O) 2 OR 11 , —S(O)N(R 11 ) 2 , —S(O) 2 N(R 11 ) 2 , —OS(O)R 11 , —OS(O) 2 R 11 , —OS(O)OR 11 , —OS(O) 2 OR 11 , —P(O)(R 11 )(OR 11 ), —P(O)(OR 11 ) 2 , —OP(O)(OR 11 ) 2 , —Si(R 11 ) 3 , —XC(X)R 11 , —XC(X)XR 11 , —XC(X)N(R 11 ) 2 , —N(R 11 )C(X)R 11 , —N(R 11 )C(X)XR 11 and —N(R 11 )C(X)N(R 11 ) 2 , wherein X is oxygen or sulphur and wherein R 11 is independently selected from the group consisting of hydrogen, halogen, C 1 -C 24 alkyl groups, C 3 -C 24 cycloalkyl groups, C 2 -C 24 (hetero)aryl groups, C 3 -C 24 alkyl(hetero)aryl groups and C 3 -C 24 (hetero)arylalkyl groups, the C 1 -C 24 alkyl groups, C 3 -C 24 cycloalkyl groups, C 2 -C 24 (hetero)aryl groups, C 3 -C 24 alkyl(hetero)aryl groups and C 3 -C 24 (hetero)arylalkyl groups optionally substituted and optionally interrupted by one or more heteroatoms selected from O and N.
5. The process according to claim 1 , wherein the halogenated aliphatic 1,3-dipole compound is selected from the group consisting of a halogenated aliphatic nitrone compound, a halogenated aliphatic azide compound, a halogenated aliphatic diazo compound, a halogenated aliphatic nitrile oxide compound, a halogenated aliphatic nitronate compound, a halogenated aliphatic nitrile imine compound, a halogenated aliphatic sydnone compound, a halogenated aliphatic sulfon hydrazide compound, a halogenated aliphatic pyridine oxide compound, a halogenated aliphatic oxadiazole 1-oxide compound, a halogenated aliphatic dipole resulting from deprotonation of an alkylated pyridinium compound, a halogenated aliphatic [1,2,3]triazol-8-ium-1-ide compound, a halogenated aliphatic 1,2,3-oxadiazol-3-ium-5-olate compound and a halogenated aliphatic 5-oxopyrazolidin-2-ium-1-ide compound.
6. The process according to claim 1 , wherein Z is selected from the group consisting of an azide group, a nitrone group, a nitrile oxide group and a diazo group.
7. The process according to claim 1 , wherein the halogenated 1,3-dipole is according to the Formula (2a):
Z—[C e R 4 2e ]—(W) g -(L′) t (A′) u 2a
wherein:
Z, L′, A′, R 4 , W, g, e, t and u are as defined in claim 1 .
8. The process according to claim 1 , wherein A′ is independently selected from the group consisting of a reporter molecule, an active substance, an enzyme, a protein, a glycoprotein, an antibody, a peptide, a polypeptide, an oligonucleotide, a monosaccharide, an oligosaccharide, a polysaccharide, a glycan, a diagnostic compound, an amino acid, a (poly)ethylene glycol diamine, a polyethylene glycol chain, a polyethylene oxide chain, a polypropylene glycol chain, a polypropylene oxide chain and a 1,x-diaminoalkane wherein x is the number of carbon atoms in the alkane.
9. The process according to claim 1 , wherein A′ is an N-acetylglucosamine (GlcNAc) moiety or an N-acetylgalactosamine (GalNAc) moiety, the GlcNAc moiety and GalNAc moiety optionally being substituted.
10. The process according to claim 1 , wherein A′ is a glycoprotein and wherein the halogenated 1,3-dipole functional group is bonded to the glycoprotein via a saccharide moiety of the glycoprotein glycan.
11. The process according to claim 1 , wherein the glycoprotein is an antibody.
12. The process according to claim 1 , wherein the halogenated 1,3-dipole compound is according to Formula (2zc) or (2zd), or their GlcNAc-derived diastereoisomers:
wherein:
W, g, Z, R 4 and e are as defined in claim 1 ; and
T is O or NH.
13. The process according to claim 1 , wherein the 1,3-halogenated dipole compound is according to Formula (2ze), (2zf), (2zg), (2zh), (2zi), (2zj) or (2zk), or their GlcNAc-derived diastereoisomers:
wherein T is O or NH.
14. The process according to claim 1 , wherein the (hetero)cyclooctyne is according to Formula (4), (5), (6), (7), (8), (9), (10), (11) or (12):
wherein:
L, p, r and A are as defined in claim 1 ;
U is O, S or NR 19 , wherein R 19 is selected from the group consisting of hydrogen and C 1 -C 24 alkyl groups;
n is 0-8;
R 6 is independently selected from the group consisting of hydrogen, halogen, C 1 -C 24 alkyl groups, C 2 -C 24 (hetero)aryl groups, C 3 -C 24 alkyl(hetero)aryl groups and C 3 -C 24 (hetero)arylalkyl groups, wherein the alkyl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are independently optionally interrupted by one of more hetero-atoms selected from the group consisting of O, N and S, and wherein the alkyl groups, (hetero)aryl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are independently optionally substituted; and
R 7 is selected from the group consisting of hydrogen, (L) p -(A) r , halogen, C 1 -C 24 alkyl groups, C 2 -C 24 (hetero)aryl groups, C 3 -C 24 alkyl(hetero)aryl groups and C 3 -C 24 (hetero)arylalkyl groups, wherein the alkyl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are independently optionally interrupted by one of more hetero-atoms selected from the group consisting of O, N and S, and wherein the alkyl groups, (hetero)aryl groups, alkyl(hetero)aryl groups and (hetero)arylalkyl groups are independently optionally substituted.
15. The process according to claim 1 , wherein A and/or A′ is independently selected from the group consisting of a reporter molecule, an active substance, a solid surface, an enzyme, a protein, a glycoprotein, an antibody, a peptide, a polypeptide, an oligonucleotide, a saccharide, an oligosaccharide, a polysaccharide, a glycan, a diagnostic compound, an amino acid, a (poly)ethylene glycol diamine, a polyethylene glycol chain, a polyethylene oxide chain, a polypropylene glycol chain, a polypropylene oxide chain and a 1,x-diaminoalkane (wherein x is the number of carbon atoms in the alkane).