Process for the cycloaddition of a halogenated 1,3-dipole compound with a (hetero)cycloalkyne

Patent metadata

Field	Value
Publication number	US-10266502-B2
Application number	US-201515113751-A
Country	US
Kind code	B2
Filing date	Jan 26, 2015
Priority date	Jan 24, 2014
Publication date	Apr 23, 2019
Grant date	Apr 23, 2019

Abstract

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).

First claim

The invention claimed is:

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

Assignees

• Synaffix Bv

Inventors

• Van Delft Floris Louis
• Van Geel Remon
• Wijdeven Maria Antonia
• Heesbeen Ryan

Classifications

• C07K16/32

  against translation products of oncogenes · CPC title

• C07C247/04

  being saturated · CPC title

• C07H19/00

  Compounds containing a hetero ring sharing one ring hetero atom with a saccharide radical; Nucleosides; Mononucleotides ; Anhydro-derivatives thereof · CPC title

• C07H13/00

  Compounds containing saccharide radicals esterified by carbonic acid or derivatives thereof, or by organic acids, e.g. phosphonic acids · CPC title

• C07K2317/24

  containing regions, domains or residues from different species, e.g. chimeric, humanized or veneered · CPC title