1-Azido-4,7,10-trioxa-13-tridecanamine

 CAS No.: 1162336-72-2  Cat No.: BP-500901  Purity: ≥ 98% (TLC) 4.5  

1-Azido-4,7,10-trioxa-13-tridecanamine is a bifunctional, polyethylene-glycol–like aliphatic linker bearing a terminal primary amine and an azide handle, with three ether units embedded along a flexible thirteen-carbon chain. The combination of a reactive azide and a nucleophilic amine enables orthogonal conjugation strategies commonly used in PROTAC synthesis: the azide can be selectively engaged via Cu(I)-catalyzed azide–alkyne cycloaddition or related click chemistries to attach to an alkyne-functional warhead or E3-ligase ligand, while the amine can be used for amide coupling or reductive amination to introduce the linker into carboxyl- or aldehyde-bearing partners. Its ether-rich segment increases conformational flexibility and can help reduce steric constraints between binding domains, supporting productive formation of ternary complexes. As a modular spacer, this linker is valuable for systematically tuning linker length and polarity in targeted protein degradation workflows, facilitating SAR-driven optimization of degrader potency and selectivity.

1-Azido-4,7,10-trioxa-13-tridecanamine

Structure of 1162336-72-2

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PROTAC Linker
Molecular Formula
C10H22N4O3
Molecular Weight
246.30
Appearance
Light yellow oil

* For research and manufacturing use only. Not for human or clinical use.

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Popular Publications Citing BOC Sciences Products
Purity
≥ 98% (TLC)
Appearance
Light yellow oil
Storage
Store at 2-8 °C
Shipping
Room temperature in continental US; may vary elsewhere.
IUPACName
3-[2-[2-(3-azidopropoxy)ethoxy]ethoxy]propan-1-amine
Synonyms
1-Amino-11-azido-3,6,9-trioxaundecane; N3-TOTA; 3-[2-[2-(3-Azidopropoxy)ethoxy]ethoxy]propan-1-amine
Boiling Point
198-202°C
Density
1.10 g/mL at 20 °C(lit.)
InChI Key
VJXPLUVBIHOQFJ-UHFFFAOYSA-N
InChI
InChI=1S/C10H22N4O3/c11-3-1-5-15-7-9-17-10-8-16-6-2-4-13-14-12/h1-11H2
SMILES
C(CN)COCCOCCOCCCN=[N+]=[N-]
1. Crystal structures of two PCN pincer iridium complexes and one PCP pincer carbodi-phospho-rane iridium inter-mediate: substitution of one phosphine moiety of a carbodi-phospho-rane by an organic azide
Gabriel Julian Partl, Felix Nussbaumer, Walter Schuh, Holger Kopacka, Klaus Wurst, Paul Peringer Acta Crystallogr E Crystallogr Commun. 2019 Jan 1;75(Pt 1):75-80. doi: 10.1107/S2056989018017644.
The structure of [Ir{(4-Cl-C6H4N3)C(dppm)-κ3 P,C,N}(dppm-κ2 P,P')]Cl·1.5CH2Cl2·0.5C7H8 (C57H48Cl2IrN3P4·1.5CH2Cl2·0.5C7H8) (2), dppm = bis-(di-phenyl-phosphino)methane {systematic name: [7-(4-chloro-phen-yl)-1,1,3,3-tetra-phenyl-5,6,7-tri-aza-κN 7-1,3λ4-diphospha-κP 1-hepta-4,6-dien-4-yl][methyl-ene-bis(di-phenyl-phosphine)-κ2 P,P']iridium(I) chloride-di-chloro-methane-toluene (2/3/1)}, resulting from the reaction of [IrClH{C(dppm)2-κ3 P,C,P)(MeCN)]Cl (1a) with 1-azido-4-chloro-benzene, shows a monocationic five-coordinate IrI complex with a distorted trigonal-bipyramidal geometry. In 2, the iridium centre is coordinated by the neutral triazeneyl-idene-phospho-rane (4-Cl-C6H4N3)C(dppm) acting as a PCN pincer ligand, and a chelating dppm unit. The structure of the coordination compound [IrCl(CN)H(C(dppm)2-κ3 P,C,P)]·CH3CN, (C52H45ClIrNP4·CH3CN) (1b) [systematic name: chlorido-cyanidohydrido(1,1,3,3,5,5,7,7-octa-phenyl-1,3λ5,5λ4,7-tetra-phospha-κ2 P 1,P 7-hept-3-en-4-yl)iridium(III) aceto-nitrile monosolvate], prepared from 1a and KCN, reveals an octa-hedral IrIII central atom with a meridional PCP pincer carbodi-phospho-rane (CDP) ligand; the chloride ligand is located trans to the central carbon of the CDP functionality while the hydrido and cyanido ligands are situated trans to each other. The chiral coordination compound [Ir(CN)((4-Cl-C6H4N3)CH(CH(P(Ph)2)2)-κ3 P,C,N)(dppm-κ2 P,P')]·2CH3OH, (C58H48ClIrN4P4·2CH3OH) (3) (systematic name: {4-[3-(4-chloro-phen-yl)triazenido-κN 3]-1,1,3,3-tetra-phenyl-1,3λ5-diphospha-κP 1-but-2-en-4-yl}cyanido[methyl-enebis(di-phenyl-phosphine)-κ2 P,P']iridium(III) methanol disolvate), formed via prolonged reaction of 1-azido-4-chloro-benzene with 1b, features a six-coordinate IrIII central atom. The iridium centre is coordinated by the dianionic facial PCN pincer ligand [(4-Cl-C6H4N3)CH(CH(P(Ph2)2)2)], a cyanido ligand trans to the central carbon of the PCN pincer ligand and a chelating dppm unit. Complex 2 exhibits a 2:1 positional disorder of the Cl- anion. The CH2Cl2 and C7H8 solvent mol-ecules show occupational disorder, with the toluene mol-ecule exhibiting additional 1:1 positional disorder with some nearly overlying carbon atoms.
2. Synthesis of 1,4-dideoxy-1,4-imino-D-glucitol, a glucosidase inhibitor
J Kuszmann, L Kiss Carbohydr Res. 1986 Sep 15;153(1):45-53. doi: 10.1016/s0008-6215(00)90194-0.
1,2:5,6-Di-O-isopropylidene-D-glucitol was converted via its 1,4-dimethanesulfonate into the 1-azido-4-methanesulfonate which, after deprotection and treatment with barium hydroxide, afforded a 9:1 mixture of the corresponding 3,4- and 4,5-anhydro derivatives. Reduction of this mixture by transfer hydrogenation using ammonium formate in methanol and Pd/C as catalyst afforded 1,4-dideoxy-1,4-imino-D-glucitol (4), the structure of which was proved after acetylation by 1H-n.m.r. spectroscopy. Compound 4 is a potent alpha-D-glucosidase inhibitor (Ki 7 X 10(-4)M) and a less potent beta-D-glucosidase inhibitor (Ki 1.25 X 10(-4)M), and inhibits beta-D-galactosidase non-competitively.
3. Catalytic Synthesis of N-Heterocycles via Direct C(sp3)-H Amination Using an Air-Stable Iron(III) Species with a Redox-Active Ligand
Bidraha Bagh, et al. J Am Chem Soc. 2017 Apr 12;139(14):5117-5124. doi: 10.1021/jacs.7b00270. Epub 2017 Mar 28.
Coordination of FeCl3 to the redox-active pyridine-aminophenol ligand NNOH2 in the presence of base and under aerobic conditions generates FeCl2(NNOISQ) (1), featuring high-spin FeIII and an NNOISQ radical ligand. The complex has an overall S = 2 spin state, as deduced from experimental and computational data. The ligand-centered radical couples antiferromagnetically with the Fe center. Readily available, well-defined, and air-stable 1 catalyzes the challenging intramolecular direct C(sp3)-H amination of unactivated organic azides to generate a range of saturated N-heterocycles with the highest turnover number (TON) (1 mol% of 1, 12 h, TON = 62; 0.1 mol% of 1, 7 days, TON = 620) reported to date. The catalyst is easily recycled without noticeable loss of catalytic activity. A detailed kinetic study for C(sp3)-H amination of 1-azido-4-phenylbutane (S1) revealed zero order in the azide substrate and first order in both the catalyst and Boc2O. A cationic iron complex, generated from the neutral precatalyst upon reaction with Boc2O, is proposed as the catalytically active species.

1-Azido-4,7,10-trioxa-13-tridecanamine, provides a flexible, ether-rich spacer terminating in a primary amine and an azide handle. Its design supports modular assembly of targeted protein degraders by enabling orthogonal conjugation strategies that are commonly used to connect ligands to E3-recruiting modules. The ether segments can enhance solubility and conformational adaptability, while the azide functionality supports bioorthogonal coupling approaches. The following points describe its structure and practical reactivity for PROTAC construction in detail below.

Structure: The linker contains an azide group and a primary amine at opposite ends, connected through a chain incorporating multiple ether linkages. It features polar heteroatoms, flexible C–N and C–O connectivity, and a terminal azide suitable for click-type transformations, contributing to favorable handling and conjugation compatibility.

Reactivity: The azide enables copper-catalyzed azide–alkyne cycloaddition or strain-promoted azide–alkene/alkyne coupling under conditions compatible with many ligand chemistries. The primary amine can be used for amide or urea formation via activated carboxylic acids or isocyanate/activated carbonate intermediates. Typical PROTAC assembly employs anhydrous or buffered organic solvents with appropriate bases, while protecting-group strategy and chemoselectivity are critical to preserve sensitive functional groups during sequential coupling steps.

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Concentration (start) x Volume (start) = Concentration (final) x Volume (final)
It is commonly abbreviated as: C1V1 = C2V2

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Tip: Chemical formula is case sensitive. C22H30N4O c22h30n40
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