Solid-Phase Assembly of “Difficult” Peptide Sequences
TABLE 1. Preparation of N-Fmoc-(r-Aminoacyl)benzotriazoles
(2) from the corresponding Fmoc-Protected r-Amino Acids (1)
racemized and/or adulterated with deletion sequences or form
aspartimides and related side products.4a,b
literature
yielda
Some of the problems associated with these difficult se-
quences in Fmoc-based SPPS have been alleviated by the use
of (i) bases such as DBU and piperazine (less nucleophilic than
the conventional piperidine) to suppress racemization and to
reduce aspartimide formation;4b,c (ii) chemical ligation tech-
niques, for example the “O-acyl isopeptide method” that can
significantly reduce isomerization of the peptide backbone;5a,b
and (iii) microwave acceleration of the deprotection and
coupling steps,4c,6 which decreases racemization as the growing
peptide has less time available for R-carbon epimerization.
The formation of aspartimides and related side products
remain a problem in SPPS. Backbone protection using the 2,4-
dimethoxybenzyl (Dmb), 2-hydroxy-4-methoxybenzyl (Hmb),
2,4,6-trimethoxybenzyl (Tmb), or 2-nitrobenzyl (Nbzl) groups7a-c
can help but requires additional steps.
entry
compound
(%)
mp (°C)
mp (°C)
ref
1
2
3
4
5
6
7
8
9
Fmoc-L-Val-Bt (2a)
84 151.9-152.6 148.3-149.8 7d
Fmoc-L-Thr(tBu)-Bt (2b)
Fmoc-L-Ser(tBu)-Bt (2c)
Fmoc-L-Tyr(tBu)-Bt (2d)
Fmoc-L-Ile-Bt (2e)
Fmoc-L-Lys(Boc)-Bt (2f)
Fmoc-Gly-Bt (2g)
80
78
84
64.6-66.8 62.2-65.0 7d
63.8-65.4 91.7-92.4b
99.0-100.5 138.4-139.3b
78 165.4-167.2 168.8-170.0 7d
78 138.2-141.7 138.4-140.6 7d
76 161.8-163.3 161.5-161.8 7d
Fmoc-L-Asp(OtBu)-Bt (2h) 81 102.1-104.3 102.0-104.0 7d
Fmoc-L-Phe-Bt (2i) 78 157.0-158.3 159.1-160.2 7d
87
75.3-78.6 121.3-123.2b
10 Fmoc-L-Leu-Bt (2j)
11 Fmoc-L-Met-Bt (2k)
12 Fmoc-L-Ala-Bt (2l)
91 129.1-131.8 122.7-123.3 7d
88 160.5-161.8 160.0-160.3 7d
a Isolated. b See Supporting Information for characterization of the
polymorphs 2c,d,j
Recently, N-Fmoc-(R-aminoacyl)benzotriazoles of proteino-
genic amino acids have been utilized in the synthesis of tri- to
heptapeptides in crude yields of 65-77% on the Rink amide
MBHA solid support.6 We now describe the microwave-assisted
syntheses of six short “difficult” R-peptide sequences in attempts
to examine the extent of racemization, incomplete aminoacy-
lation/deprotection reactions, and the formation of aspartimides
when N-Fmoc-(R-aminoacyl)benzotriazoles are used as activat-
ing reagents for SPPS.
ꢀ-Hydroxy-R-amino acids, such as serine, 3-hydroxyproline,
threonine, and certain analogues (for example, ꢀ-hydroxyphe-
nylalanine and ꢀ-hydroxytyrosine) are widely distributed as
components of biologically active natural products.8a-d The
syntheses of peptides containing ꢀ-hydroxy-R-amino acids can
be challenging (i) due to the risk of racemization of such residues
during both the stepwise and convergent approaches to Fmoc
SPPS5b,9 and (ii) because of aggregation, which may commence
as early as the addition of the fifth amino acid residue in certain
ꢀ-hydroxy-R-amino acid containing sequences.5b,10a,b It is also
known hydrophobic and branched chain amino acids (BCAAs),
such as valine, isoleucine, and leucine, promote aggregation
during peptide synthesis and purification, particularly when a
large percentage of such hydrophobic residues is present.
In the literature the effect of the amino acid hydrophobicity
is evident in the DIPCDI-HOBt (1,3-diisopropylcarbodiimide-
hydroxybenzotriazole) stepwise SPPS of H-Val-Val-Ser-Val-
Val-NH2 (3)5a,b where the undesired N-protected peptide amide
Fmoc-Val-Val-Ser-Val-Val-NH2 was produced as the major
compound (1.1-fold higher than the desired peptide 3 as
evidenced by HPLC5a). In our presently reported work, using
N-Fmoc-(R-aminoacyl)benzotriazoles, peptide 3 was obtained
as the major product (Table 2, Figure 1; Figure 9S, Supporting
Information) with no evidence of the undesired Fmoc-Val-Val-
Ser-Val-Val-NH2 peptide or any racemized product. A possible
explanation for the absence of microaggregates in the benzot-
riazole-assisted synthesis of 3 when compared to the DIPCDI-
HOBt route5a,b could be the impact of microwave irradiation
on the environment of the growing peptide. In our present work,
the alteration of the microenvironment by microwave irradiation
may hinder the formation of insoluble microaggregates and
facilitate the removal of the Fmoc groups from the resin bound
peptide 3.4c Additionally, our microwave-assisted stepwise
protocol reduced the total coupling time for the synthesis of 3
from 105a to 2.5 h (open vessel; 1.5 h when closed vessel
Results and Discussion
N-Fmoc-(R-aminoacyl)benzotriazoles 2a-l (76-91%) were
prepared as previously described7d by treatment of purchased
Fmoc-L-protected amino acids 1a-l with 4 equiv of benzot-
riazole and 1 equiv of SOCl2 in THF at room temperature for
2 h (Scheme 1, Table 1).
SCHEME 1. Preparation of
N-Fmoc-(r-Aminoacyl)benzotriazoles
A standard SPPS approach was employed in the syntheses
of the “difficult” peptides (3-10), in which the appropriate
N-Fmoc-(R-aminoacyl)benzotriazole (2) was coupled in turn to
the growing peptide (Scheme 2). Subsequent cleavage7e from
the Rink amide MBHA resin and purification of the crude
peptide provided the desired product.
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