Báo cáo khoa học: Prediction of coenzyme specificity in dehydrogenases ⁄ reductases A hidden Markov model-based method and its application on complete genomes doc
... Prediction of coenzyme specificity in dehydrogenases
reductases
A hidden Markov model-based method and its application
on complete genomes
Yvonne Kallberg
1,2
and Bengt Persson
1,2
1 IFM Bioinformatics, ... fifth
major group, zinc-containing alcohol dehydrogenases,
has almost as many members as the SDRs (Table 2).
Transmembrane regions
A number of deh...
... reconstruct the lysine-
degradation pathway in P. aeruginosa using EC number information. As a
result, we identified PA0266 as a putative 5-aminovalerate aminotransferase
(EC 2.6.1.48) and PA0265 ... the lysine-
degradation pathway of P. aeruginosa, because this
pathway contains many missing enzymes and our
understanding of the detailed enzymatic behavior
in this pathway is far...
... from
bacteria and transferred to a new Petri dish and incu-
bated overnight with medium containing gentamicin.
Bacterial growth of each strain was assessed by viable
counts, both during initial infection ... prokaryotic evolution has created a
new way to take advantage of an evolutionary ‘novel’
eukaryotic 14-3-3 protein family, using them as a
necessary cofactor to activate let...
... order and times of elution
were approximately CoQ
2
(9 min), CoQ
2
H
2
(11 min),
decylQ (17 min) and decylQ
2
(22 min). The area under
each peak was integrated and compared with standards
containing ... h, at which point it had reached A
600
0.8 and already been sta-
tionary for several hours and would remain that way for a number of days (squares). At the point indicated...
... and a C-terminal flavodoxin-like
domain (residues 253–404) containing FMN. Two
monomers assemble via a head-to-tail arrangement,
such that the b-lactamase and the flavodoxin domains
face each other, ... contains both irons in a similar position and
an occupancy as found in the reduced state. Addition-
ally, Glu85 and Asp87 adopt the conformation of the
reduced state, and t...
... transaminase and diminishes upon forma-
tion of pyridoxamine after reacting with amino group
donors (the half reaction of the overall transaminase-
mediated reactions). The spectrum of hKAT-I ... hour.
Among the 12 a- keto acids capable of functioning as amino
group acceptors for hKAT-I, a- ketobutyrate, mecapto-
pyruvate and oxaloacetate showed no substrate inhibition
at satura...
... weights w
j
are estimated from data. The
training data for fitting these linear models is ob-
tained in the following way. For each configuration
(combination of language pair and domain) c and
test ... there are more anchor points than pa-
rameters, and also in view of the combination of inference and
extrapolation in Section 6.
7
Curves on different test data for the sam...
... continuation argument of a
i
, 6) a
i
CAa
j
: a
i
is
the continuation argument of a
j
, 7) a
i
= a
j
: a
i
and a
j
are labeled as the same role label, and 8)
a
i
∼ a
j
: a
i
and a
j
are labeled as the ... gold parsing data and 95.14% accuracy
on Charniak automatic parsing data.
Most existing SRL systems divide this task into
two subtasks: Argument Identifi...
... TSSK3.
Abbreviations
AGC, containing PKA, PKG, PKC kinases family; CaMK, calmodulin-dependent protein kinase family; GA beads, glutathione agarose beads;
GST, glutathione S-transferase; HA, haemagglutinin ... Bucko-Justyna et al. Characterization and regulation of TSSK3
Characterization of testis-specific serine–threonine kinase 3
and its activation by phosphoinositide-dependent
kina...
... Fragariaxananassa
UGT78D1 A. thaliana
UGT8 6A1 A. thaliana
UGT8 7A1 A. thaliana
UGT8 3A1 A. thaliana
UGT8 2A1 A. thaliana
UGT8 5A1 A. thaliana
SbHMNGT S. bicolor
UGT76D1
A. thaliana
UGT76E1 A. thaliana
S39507 ... thaliana
OsSGT1 O. sativa
UGT74F1
A. thaliana
UGT74F2 A. thaliana
NtGT2
N. tabacum
UGT75C1 A. thaliana
UGT75B1 A. thaliana
UGT75D1 A. thaliana
UGT84B1 A. thaliana
UGT8...