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PDBsum entry 1vbg
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References listed in PDB file
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Key reference
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Title
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Crystal structures of pyruvate phosphate dikinase from maize revealed an alternative conformation in the swiveling-Domain motion.
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Authors
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T.Nakanishi,
T.Nakatsu,
M.Matsuoka,
K.Sakata,
H.Kato.
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Ref.
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Biochemistry, 2005,
44,
1136-1144.
[DOI no: ]
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PubMed id
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Abstract
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Pyruvate phosphate dikinase (PPDK) reversibly catalyzes the conversion of ATP,
phosphate, and pyruvate into AMP, pyrophosphate, and phosphoenolpyruvate (PEP),
respectively. Since the nucleotide binding site (in the N-terminal domain) and
the pyruvate/PEP binding site (in the C-terminal domain) are separated by
approximately 45 A, it has been proposed that an intermediary domain, called the
central domain, swivels between these remote domains to transfer the phosphate.
However, no direct structural evidence for the swiveling central domain has been
found. In this study, the crystal structures of maize PPDK with and without PEP
have been determined at 2.3 A resolution. These structures revealed that the
central domain is located near the pyruvate/PEP binding C-terminal domain, in
contrast to the PPDK from Clostridium symbiosum, wherein the central domain is
located near the nucleotide-binding N-terminal domain. Structural comparisons
between the maize and C. symbiosum PPDKs demonstrated that the swiveling motion
of the central domain consists of a rotation of at least 92 degrees and a
translation of 0.5 A. By comparing the maize PPDK structures with and without
PEP, we have elucidated the mode of binding of PEP to the C-terminal domain and
the induced conformational changes in the central domain.
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Secondary reference #1
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Title
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Purification, Crystallization and preliminary X-Ray diffraction studies on pyruvate phosphate dikinase from maize.
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Authors
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T.Nakanishi,
Y.Ohki,
J.Oda,
M.Matsuoka,
K.Sakata,
H.Kato.
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Ref.
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Acta Crystallogr D Biol Crystallogr, 2004,
60,
193-194.
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PubMed id
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Secondary reference #2
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Title
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Primary structure of maize pyruvate, Orthophosphate dikinase as deduced from cdna sequence.
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Authors
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M.Matsuoka,
Y.Ozeki,
N.Yamamoto,
H.Hirano,
Y.Kano-Murakami,
Y.Tanaka.
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Ref.
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J Biol Chem, 1988,
263,
11080-11083.
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PubMed id
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