CHEMBIOCHEM
COMMUNICATIONS
[
25]
and HIV reverse transcriptase inhibitors.
These enzymes
Imine Reductase Engineering Database).
might offer an alternative route to (R)-2, as the shortest enan-
Each of these genes was synthesized in codon-optimized
form for expression in Escherichia coli with an N-terminal His6
tag to facilitate purification. Biocatalyst production was per-
formed by using the arabinose-inducible pBAD expression
tioselective synthesis comprises a time-consuming four step
[
26]
procedure.
Shortly after the discovery of the novel IREDs, the molecular
[29]
structure of the R-selective IRED from Streptomyces kanamyceti-
system in E. coli strain JW5510,
and overnight expression
[
27]
cus ((R)-IRED-Sk) was solved by X-ray crystallography, and the
biosynthetic potential of (S)-IRED from Streptomyces sp.
GF3546 ((S)-IRED-Ss) was explored with a variety of cyclic
yielded soluble, active enzymes. Initial experiments with cell
lysate indicated NADPH-dependent reductase activity with 1 as
substrate. In addition, NADH was tested as a cofactor, but no
enzymatic activity was detected. In controls (lysate of cells
with an empty vector) no increase in NADPH oxidation rate
was detected after the addition of 1.
[
28]
imines. However, the promising imine reductase superfamily
consists so far of only a few described members.
To expand the scope of known IREDs, we established the
Imine Reductase Engineering Database (http://www.ired.uni-
stuttgart.de) with more than 350 protein entries. By sequence
similarity to the described IREDs, two novel R-type and one S-
type IRED were selected from our database for confirmation of
their catalytic activity. Here, we report the production and ini-
tial characterization of these enzymes and their use as whole-
cell biocatalysts for the reduction of 1. The novel imine reduc-
tases showed excellent enantioselectivities. The enantioprefer-
ences of the two R-type and the S-type IREDs were deter-
mined, thus confirming their database assignment in R-IRED-
type and S-IRED-type superfamilies. Moreover, functionally rele-
vant amino acids were identified by conservation analysis and
verified by site-directed mutagenesis.
For activity assays and biotransformations, the enzymes
2
+
were purified to homogeneity by Ni -affinity chromatography.
Purified IREDs have been described to function as di-
[21,22,27]
mers,
and SDS-PAGE analysis confirmed that the purified
enzymes had the expected molecular weight (32–36 kDa per
monomer; Figure S3).
To evaluate imine reduction activity with purified enzymes,
in vitro biotransformations were performed for 24 h, with
10 mm 1 as substrate and glucose-6-phosphate/glucose-6-
phosphate dehydrogenase as a cofactor regeneration system.
For (R)-IRED-Sr excellent substrate conversion was observed:
9.74 mm product was detected after 0.5 h. High activities were
also obtained with (R)-IRED-St: 9.91 mm 2 detected after 1 h.
Similar conversion rates (~95%) were observed with the enan-
tiocomplementary (S)-IRED-Pe within 24 h (Tables S6–S8 and
Figures S4–S6).
For the establishment of the Imine Reductase Engineering Da-
tabase a BLAST search was performed with the characterized
[
27]
[22]
IREDs, (R)-IRED-Sk and (S)-IRED-Ss. Sequences with E values
À30
below 10 were collected and assigned to families according
To avoid the use of the expensive and unstable NADPH co-
factor and its regeneration system, the performance of cells ex-
pressing these enzymes as whole-cell biocatalysts was investi-
to sequence similarity. Sequence similarity network analyses
revealed a clear separation into two superfamilies (Figure S1 in
the Supporting Information): the smaller superfamily (74 pro-
teins) includes (S)-IRED-Ss, and the larger superfamily (282 pro-
teins) includes the two previously characterized (R)-IREDs.
To select new IREDs, a conservation analysis was performed
for each superfamily (Table S2). Promising candidates were
chosen based on high sequence similarity to the characterized
À1
gated (final OD600 =30 in biotransformations, ꢀ50 mgmL cell
wet weight). Table 1 shows the data of 2-methylpyrroline 1 con-
version with wild-type and over 24 h, with particular focus on
the initial time points 0.5 and 1 h. Under optimized conditions
with resting E. coli cells and glucose for in situ cofactor regen-
eration, full substrate conversion was achieved with all strains
expressing wild-type enzymes. For cells expressing (R)-IRED-Sr
and (R)-IRED-St, a 3 h reaction time was sufficient for the com-
plete conversion of substrate 1 (see also Table S9). As previous-
ly observed in in vitro biotransformations, an increased reac-
tion time (8 h) was required for (S)-IRED-Pe to obtain complete
conversion (Tables 1 and S9). In contrast, cells harboring an
[
27]
[20]
IREDs (R)-IRED-Sk and (R)-IRED-Ss as well as to (S)-IRED-
[
22]
Ss, provided they had no significant deviation at the con-
served positions (Tables S3–S5 and Figure S2). The selected R-
type IRED and S-type IRED sequences were derived from Strep-
tosporangium roseum DSM 43021 ((R)-IRED-Sr, 60.8% sequence
identity to (R)-IRED-Sk), Streptomyces turgidiscabies ((R)-IRED-St,
80.7% sequence identity to (R)-IRED-Ss), and Paenibacillus elgii
((S)-IRED-Pe, 60.5% sequence
identity to (S)-IRED-Ss). Detailed
information on the selected
IREDs is given in the Supporting
Information. (R)-IRED-Sr is anno-
Table 1. Product formations [mm] and enantiomeric excesses of 2-methylpyrrolidine 2 from biotransformations
with imine reductases wild-type and mutant whole cells.
[a]
IRED variant
Reaction time [h]
8
ee [%]
+
tated as an NAD -dependent
0.5
1
24
glycerol-3-phosphate dehydro-
genase in GenBank, whereas
(
R)-IRED-Sr
4.63Æ0.04
2.96Æ0.15
1.87Æ0.01
0.72Æ0.01
0.11Æ0.02
–
8.98Æ0.29
6.46Æ0.42
3.81Æ0.04
1.49Æ0.03
0.22Æ0.01
–
10.75Æ0.93
10.69Æ0.57
9.45Æ0.13
5.83Æ0.42
1.34Æ0.03
<0.05
10.32Æ0.63
98.3 R
99.0 R
94.9 S
91.4 R
94.1 R
65.7 S
(R)-IRED-St
10.38Æ0.47
9.68Æ0.10
6.37Æ0.38
1.74Æ0.24
<0.1
(
(
(
(
S)-IRED-Pe
(
R)-IRED-St and (S)-IRED-Pe are
R)-IRED-Sr D170A
R)-IRED-St D172A
S)-IRED-Pe Y187A
classified as 6-phosphogluco-
nate dehydrogenases, which are
the most common GenBank an-
notations for members of the
[
a] Enantiomeric excesses of the products were determined after 24 h; error bars were in general below 0.1%.
ꢁ
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