N-DBCO-N-bis(PEG2-C2-acid)

 CAS No.: 2110449-00-6  Cat No.: BP-500304  Purity: 98% 4.5  

N-DBCO-N-bis(PEG2-C2-acid) is a bifunctional PROTAC linker reagent featuring a cyclooctyne (DBCO) handle for strain-promoted azide–alkyne cycloaddition and two short, PEG2-terminated carboxylate “arms” that provide hydrophilic spacing and sites for amide coupling to targeting and E3-ligand modules. Structurally, it acts as a flexible conjugation scaffold that connects two biomolecule-reactive ends while presenting the DBCO group for rapid, catalyst-free click chemistry under mild conditions. In PROTAC design, this enables modular assembly: researchers can first install the PEG2 carboxylate arms onto complementary building blocks (e.g., via standard peptide-coupling to amines) and then perform orthogonal DBCO–azide ligation to introduce or swap the azide-bearing component without harsh reagents that might compromise sensitive ligands. This reagent is valuable for constructing well-defined, water-compatible targeted protein degradation constructs and for optimizing linker length and solubility to improve conjugation efficiency and experimental reproducibility.

N-DBCO-N-bis(PEG2-C2-acid)

Structure of 2110449-00-6

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PROTAC Linker
Molecular Formula
C₃₃H₄₀N₂O₁₀
Molecular Weight
624.68

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

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Purity
98%
Storage
Please store the product under the recommended conditions in the Certificate of Analysis.
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Room temperature in continental US; may vary elsewhere.
IUPACName
3-[2-[2-[[4-(2-azatricyclo[10.4.0.04,9]hexadeca-1(16),4,6,8,12,14-hexaen-10-yn-2-yl)-4-oxobutanoyl]-[2-[2-(2-carboxyethoxy)ethoxy]ethyl]amino]ethoxy]ethoxy]propanoic acid
Synonyms
N-DBCO-N-bis(PEG2-acid)
InChI Key
SQZXTKBMAFTQDM-UHFFFAOYSA-N
InChI
InChI=1S/C33H40N2O10/c36-30(11-12-31(37)35-25-28-7-2-1-5-26(28)9-10-27-6-3-4-8-29(27)35)34(15-19-44-23-21-42-17-13-32(38)39)16-20-45-24-22-43-18-14-33(40)41/h1-8H,11-25H2,(H,38,39)(H,40,41)
SMILES
C1C2=CC=CC=C2C#CC3=CC=CC=C3N1C(=O)CCC(=O)N(CCOCCOCCC(=O)O)CCOCCOCCC(=O)O
1. DABSO as a SO2 gas surrogate in the synthesis of organic structures
Mehri Seyed Hashtroudi, Vaezeh Fathi Vavsari, Saeed Balalaie Org Biomol Chem. 2022 Mar 16;20(11):2149-2163.doi: 10.1039/d1ob02199k.
1,4-Diazabicyclo[2.2.2]octane bis(sulfur dioxide), DABCO·SO2, or DABSO, a bench-stable colorless solid, is industrially produced by the reaction of DABCO with condensed and bubbled sulfur dioxide gas at a low temperature. However, in some cases, it could catalyze organic reactions. DABSO is mostly used as a surrogate of gaseous sulfur dioxide to react with organic substrates, including Grignard reagents, aryl or alkyl halides, boronic acids, various amines, diazonium salts, carboxylic acids, heterocycles, acrylamides, alkenes, alkynes, and β-alkynyl ketones, through one-pot protocols, annulation, or coupling reactions. Most of these synthetic reactions proceed via the formation of a sulfinate radical or anion. Using DABSO as a reagent, various simple to complex structures can be constructed, such as metal sulfinates, sulfonyl fluorides, sulfonamides, sulfonohydrazides, sulfonic esters, sulfonic thioesters, and sulfones. In this review, we want to investigate mechanistically the role of DABSO in organic synthesis.
2. Bis-Thiourea Chiral Sensor for the NMR Enantiodiscrimination of N-Acetyl and N-Trifluoroacetyl Amino Acid Derivatives
Alessandra Recchimurzo, Federica Balzano, Gloria Uccello Barretta, Luca Gherardi J Org Chem. 2022 Sep 16;87(18):11968-11978.doi: 10.1021/acs.joc.2c00814.Epub 2022 Sep 5.
A C2-symmetrical bis-thiourea chiral solvating agent (CSA), TFTDA, for NMR spectroscopy has been obtained by reacting (1R,2R)-1,2-bis(2-hydroxyphenyl)ethylenediamine and 3,5-bis(trifluoromethyl)phenyl isothiocyanate. TFTDA shows remarkable propensity to enantiodiscriminate N-trifluoroacetyl (N-TFA) and N-acetyl (N-Ac) derivatives of amino acids with free carboxyl functions, with the co-presence of 1,4-diazabicyclo[2.2.2]octane (DABCO) as the third achiral additive, which is needed for substrate solubilization. TFTDA shows enhanced enantiodiscriminating efficiency in comparison with the corresponding monomeric counterpart, TFTMA, pointing out cooperativity between its two symmetrical entities. A wide range of amino acid derivatives have been efficiently enantiodiscriminated in CDCl3, with high enantioresolution quotients, which guarantee high quality in applications devoted to the quantification of enantiomers. High enantiodiscriminating efficiency is maintained also in diluted 5 mM conditions or in the presence of sub-stoichiometric amounts of CSA (0.3 equiv). The role of phenolic hydroxyls in the DABCO-mediated interaction mechanism between TFTDA and the two enantiomeric substrates has been pointed out by means of diffusion-ordered spectroscopy (DOSY) and rotating frame Overhauser effect spectroscopy (ROESY) experiments. A conformational model for both the CSA and its diastereomeric solvates formed with the two enantiomers of N-acetyl leucine has also been conceived on the basis of ROE data in order to give a chiral discrimination rationale.
3. Crystallographic identification of a series of manganese porphyrin complexes with nitrogenous bases
Nicole Lahanas, Pavel Kucheryavy, Roger A Lalancette, Jenny V Lockard Acta Crystallogr C Struct Chem. 2019 Mar 1;75(Pt 3):304-312.doi: 10.1107/S2053229619001232.Epub 2019 Feb 13.
Studying the axial ligation behavior of metalloporphyrins with nitrogenous bases helps to better understand not only the biological function of heme-based protein systems, but also the catalytic properties of porphyrin-based reaction sites in other biomimetic synthetic support environments. Unlike iron porphyrin complexes, little is known about the axial ligation behavior of Mn porphyrins, particularly in the solid state with Mn in the +3 oxidation state. Here, we present the syntheses and crystal and molecular structures of three new high-spin manganese(III) porphyrin complexes with the different amine-based axial ligands imidazole (im), piperidine (pip), and 1,4-diazabicyclo[2.2.2]octane (DABCO), namely bis(imidazole)(5,10,15,20-tetraphenylporphyrinato)manganese(III) chloride chloroform disolvate, [Mn(C44H28N4)(C3H4N2)2]Cl·2CHCl3 or [Mn(TPP)(im)2]Cl·2CHCl3 (TPP = 5,10,15,20-tetraphenylporphyrin), (I), bis(piperidine)(5,10,15,20-tetraphenylporphyrinato)manganese(III) chloride, [Mn(C44H28N4)(C5H11N)2]Cl or [Mn(TPP)(pip)2]Cl, (II), and chlorido(1,4-diazabicyclo[2.2.2]octane)(5,10,15,20-tetraphenylporphyrin)manganese(III)-1,4-diazabicyclo[2.2.2]octane-toluene-water (4/4/4/1), [Mn(C44H28N4)Cl(C6H12N2)]·C6H12N2·C7H8·0.25H2O or [Mn(TPP)Cl(DABCO)]·(DABCO)·(toluene)·0.25H2O, (IV). A fourth complex, chlorido(pyridine)(5,10,15,20-tetraphenylporphryinato)manganese(III) pyridine disolvate, [Mn(C44H28N4)Cl(C5H5N)]·2C5H5N or [Mn(TPP)Cl(py)]·2(py), (III), acquired using different crystallization methods from published data, is also reported and compared to the previous structures.

N-DBCO-N-bis(PEG2-C2-acid), is designed to enable efficient conjugation strategies that connect targeting ligands to E3-recruiting or other functional modules in a modular PROTAC workflow. Its DBCO functionality supports rapid bioorthogonal coupling, while the PEG-based spacer and terminal carboxylic acid groups support solubility and subsequent derivatization. The following sections describe its structure and practical reactivity considerations for constructing well-defined degraders.

Structure: The linker contains a DBCO alkynyl cyclooctyne motif for strain-promoted azide–alkyne cycloaddition, flanked by an N-linked architecture and PEG-derived ether segments. Terminal carboxylic acid groups provide ionizable functionality, enabling salt formation and controlled polarity. Overall, it combines hydrophilicity with a reactive cyclooctyne handle.

Reactivity: DBCO-based coupling proceeds via strain-promoted azide–alkyne cycloaddition under mild, catalyst-free conditions, typically in aqueous or mixed aqueous buffers compatible with sensitive ligands. For PROTAC assembly, the carboxylic acid groups are commonly used for amide or ester formation using standard coupling chemistries, with bases and activating reagents selected to match functional-group compatibility. This modular reactivity supports stepwise synthesis and purification of conjugates.

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* Our calculator is based on the following equation:
Concentration (start) x Volume (start) = Concentration (final) x Volume (final)
It is commonly abbreviated as: C1V1 = C2V2

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g/mol
Tip: Chemical formula is case sensitive. C22H30N4O c22h30n40
g/mol
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