Diisopropylcarbodiimide
(DIC) constitutes one of the most widely
used coupling reagents for amide bond formation in peptide synthesis.
We have previously reported that DIC contains a varying amount of
sulfur (61–2030 ppm), and that the main S-containing impurity
in DIC is the thiourea DITU, which exhibits an excellent ability to
suppress side reactions caused by N-oxyl radicals formed from common
N-hydroxyl-coupling additives such as HOBt and Oxyma (Green
Chem.
2019, 21, 5990). Aiming
to understand how the quality of DIC impacts peptide synthesis, here,
we report an evaluation of 14 batches of GMP-grade DIC from seven
different vendors. With the evaluation by elemental analysis (S),
gas chromatography–mass spectrometry, high-performance liquid
chromatography, liquid chromatography-mass spectrometry, and nuclear
magnetic resonance, we determined that the main S-containing impurity
in DIC currently in use is not DITU, but rather the diazetidine-2-thione
[1,3-diisopropyl-4-(isopropylimino)-1,3-diazetidine-2-thione, DIDT],
formed by a 2 + 2 cycloaddition between DIC and iPr-NCS. The identity of DIDT was confirmed by a synthesis from DIC
and iPr-NCS, followed by spiking a batch of DIC with
the synthesized DIDT material. In a comparative evaluation of DITU
and DIDT aimed at determining their ability to suppress breakdown
of Fmoc-Cys(Trt)-OH caused by N-oxyl radicals formed from Oxyma, DITU
completely prevented the Cys decomposition, whereas DIDT had no effect
on the suppression of the breakdown of the amino acid. Finally, catalytic
amounts of DITU as well as thiols DTT and NAC had a positive effect
on minimization of the HOBt-induced breakdown of Fmoc-Trp(Boc)-OH,
whereas the urea DIU, formed in every DIC-mediated peptide coupling
reaction, accelerated the breakdown of the Trp substrate.