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PDBsum entry 1c4t
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Contents |
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* Residue conservation analysis
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References listed in PDB file
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Key reference
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Title
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Expression, Purification, And structural analysis of the trimeric form of the catalytic domain of the escherichia coli dihydrolipoamide succinyltransferase.
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Authors
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J.E.Knapp,
D.Carroll,
J.E.Lawson,
S.R.Ernst,
L.J.Reed,
M.L.Hackert.
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Ref.
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Protein Sci, 2000,
9,
37-48.
[DOI no: ]
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PubMed id
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Abstract
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The dihydrolipoamide succinyltransferase (E2o) component of the
alpha-ketoglutarate dehydrogenase complex catalyzes the transfer of a succinyl
group from the S-succinyldihydrolipoyl moiety to coenzyme A. E2o is normally a
24-mer, but is found as a trimer when E2o is expressed with a C-terminal [His]6
tag. The crystal structure of the trimeric form of the catalytic domain (CD) of
the Escherichia coli E2o has been solved to 3.0 A resolution using the Molecular
Replacement method. The refined model contains an intact trimer in the
asymmetric unit and has an R-factor of 0.257 (Rfree = 0.286) for 18,699
reflections between 10.0 and 3.0 A resolution. The core of tE2oCD (residues
187-396) superimposes onto that of the cubic E2oCD with an RMS difference of 0.4
A for all main-chain atoms. The C-terminal end of tE2oCD (residues 397-404)
rotates by an average of 37 degrees compared to cubic E2oCD, disrupting the
normal twofold interface. Despite the alteration of quaternary structure, the
active site of tE2oCD shows no significant differences from that of the cubic
E2oCD, although several side chains in the active site are more ordered in the
trimeric form of E2oCD. Analysis of the available sequence data suggests that
the majority of E2 components have active sites that resemble that of E. coli
E2oCD. The remaining E2 components can be divided into three groups based on
active-site sequence similarity. Analysis of the surface properties of both
crystal forms of E. coli E2oCD suggests key residues that may be involved in the
protein-protein contacts that occur between the catalytic and lipoyl domains of
E2o.
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Secondary reference #1
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Title
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Crystal structure of the truncated cubic core component of the escherichia coli 2-Oxoglutarate dehydrogenase multienzyme complex.
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Authors
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J.E.Knapp,
D.T.Mitchell,
M.A.Yazdi,
S.R.Ernst,
L.J.Reed,
M.L.Hackert.
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Ref.
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J Mol Biol, 1998,
280,
655-668.
[DOI no: ]
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PubMed id
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Figure 11.
Figure 11. A probable E2oCD-
coenzyme A complex. The hypo-
thetical model of this interaction
suggests that upon coenzyme A
binding (shown in green), Asp379
changes conformation to form a
salt bridge with Arg1840 (O
d1
.NH2
distance of 2.5 Å , O
d2
.NH2 dis-
tance of 3.5 Å ). The new confor-
mation of Asp379 allows its side-
chain to form an electrostatic
interaction with His375 (O
d1
.N
d1
distance of 3.4 Å ).
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Figure 13.
Figure 13. A ball and stick rep-
resentation of succinyldihydrolipo-
amide modeled into the active site
of E2oCD. The succinyl-binding
site (drawn as a stick represen-
tation) contains several hydroxyl
groups (Ser330, Ser333, and
Tyr373). Of the two bases near the
succinyl group, His348 appears to
be oriented so that it could interact
with the substrate whereas Arg381
would point away from the succi-
nyl-binding pocket.
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The above figures are
reproduced from the cited reference
with permission from Elsevier
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Secondary reference #2
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Title
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Nucleotide sequence of the sucb gene encoding the dihydrolipoamide succinyltransferase of escherichia coli k12 and homology with the corresponding acetyltransferase.
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Authors
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M.E.Spencer,
M.G.Darlison,
P.E.Stephens,
I.K.Duckenfield,
J.R.Guest.
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Ref.
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Eur J Biochem, 1984,
141,
361-374.
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PubMed id
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