Hirudin is an anticoagulant polypeptide isolated
from a medicinal leech that inhibits thrombin with extraordinary
potency (Kd = 0.2–1.0 pM) and
selectivity. Hirudin is composed of a compact N-terminal
region (residues 1–47, cross-linked by three disulfide
bridges) that binds to the active site of thrombin, and
a flexible C-terminal tail (residues 48–64) that
interacts with the exosite I of the enzyme. To minimize
the sequence of hirudin able to bind thrombin and also
to improve its therapeutic profile, several N-terminal
fragments have been prepared as potential anticoagulants.
However, the practical use of these fragments has been
impaired by their relatively poor affinity for the enzyme,
as given by the increased value of the dissociation constant
(Kd) of the corresponding thrombin
complexes (Kd = 30–400 nM). The
aim of the present study is to obtain a derivative of the
N-terminal domain 1–47 of hirudin displaying enhanced
inhibitory potency for thrombin compared to the natural
product. In this view, we have synthesized an analogue
of fragment 1–47 of hirudin HM2 in which Val1 has
been replaced by tert-butylglycine, Ser2 by Arg,
and Tyr3 by β-naphthylalanine, to give the BugArgNal
analogue. The results of chemical and conformational characterization
indicate that the synthetic peptide is able to fold efficiently
with the correct disulfide topology (Cys6–Cys14,
Cys16–Cys28, Cys22–Cys37), while retaining
the conformational properties of the natural fragment.
Thrombin inhibition data indicate that the effects of amino
acid replacements are perfectly additive if compared to
the singly substituted analogues (De Filippis V, Quarzago
D, Vindigni A, Di Cera E, Fontana A, 1998, Biochemistry
37:13507–13515), yielding a molecule that inhibits
the fast or slow form of thrombin by 2,670- and 6,818-fold
more effectively than the natural fragment, and that binds
exclusively at the active site of the enzyme with an affinity
(Kd,fast = 15.4 pM,
Kd,slow = 220 pM) comparable
to that of full-length hirudin (Kd,fast
= 0.2 pM, Kd,slow = 5.5 pM). Moreover,
BugArgNal displays absolute selectivity for thrombin over
the other physiologically important serine proteases trypsin,
plasmin, factor Xa, and tissue plasminogen activator, up
to the highest concentration of inhibitor tested (10 μM).