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dictyNews Volume 23 Number 08
Dicty News
Electronic Edition
Volume 23, number 8
August 27, 2004
Please submit abstracts of your papers as soon as they have been
accepted for publication by sending them to dicty@northwestern.edu
or by using the form at
http://dictybase.org/db/cgi-bin/dictyBase/abstract_submit.
Back issues of Dicty-News, the Dicty Reference database and other
useful information is available at dictyBase - http://dictybase.org.
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Abstracts
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Microarray Data Mining with Visual Programming
Tomaz Curk (1), Janez Demsar (1), Qikai Xu (3,4), Gregor Leban (1), Uros
Petrovic (2), Ivan Bratko (1,2), Gad Shaulsky (3,4) and Blaz Zupan (1,3,*)
1 University of Ljubljana, Faculty of Computer and Information Science,
2 Jozef Stefan Institute, Ljubljana, Slovenia, 3 Department of Molecular
and Human Genetics, 4 Graduate Program in Structural and Computational
Biology and Molecular Biophysics, Baylor College of Medicine, Houston,
TX 77030, USA. * corresponding author
Bioinformatics, in press.
Summary: Visual programming offers an intuitive means of combining known
analysis and visualization methods into powerful applications. The system
presented here enables users who are not programmers to manage microarray
and genomic data flow and to customize their analysis by combining common
data analysis tools to fit their needs.
Availability: magix.fri.uni-lj.si/bi-visprog
Contact: blaz.zupan@fri.uni-lj.si
Supplementary information: magix.fri.uni-lj.si/bi-visprog
Submitted by: Gad Shaulsky [gadi@bcm.tmc.edu]
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Calmodulin Binds to and Inhibits the Activity of Phosphoglycerate Kinase
Michael A. Myre1,2
Danton H. OâDay1,3
1Department of Biology, University of Toronto at Mississauga,
3359 Mississauga Rd. Mississauga, ON, L5L 1C6 Canada
2Current address: Harvard Medical School, Massachusetts General Hospital,
Building 114--114 16th Street, Charlestown MA 02129-9142
3Corresponding author: Phone: 905-828-3896; Fax: 905-828-3792;
Email: doday@utm.utoronto.ca
Biochimica Biophysica Acta÷Molecular Cell Research, in press
Phosphoglycerate kinase functions as a cytoplasmic ATP-generating glycolytic
enzyme, a nuclear mediator in DNA replication and repair, a stimulator of
Sendai virus transcription and an extracellular disulphide reductase in
angiogenesis. Probing of a developmental expression library from
Dictyostelium discoideum with radiolabelled calmodulin led to the isolation
of a cDNA encoding a putative calmodulin-binding protein (DdPGK) with 68%
sequence similarity to human PGK. Dictyostelium, rabbit and yeast PGKs
bound to calmodulin-agarose in a calcium-dependent manner while DdPGK
constructs lacking the calmodulin-binding domain (209KPFLAILGGAKVSDKIKLIE228)
failed to bind. The calmodulin-binding domain shows 80% identity between
diverse organisms and is situated beside the hinge and within the ATP
binding domain adjacent to nine mutations associated with phosphoglycerate
kinase deficiency. Calmodulin addition inhibits yeast PGK activity in vitro
while the calmodulin antagonist W-7 abrogates this inhibition. Together
these data suggest that PGK activity may be negatively regulated by calcium
and calmodulin signalling in eukaryotic cells.
Submitted by: Danton O'Day [doday@utm.utoronto.ca]
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Dictyostelium Nucleomorphin is a member of the BRCT-domain family of cell
cycle checkpoint proteins
Michael A. Myre1,2
Danton H. OâDay1,3
1Department of Biology, University of Toronto at Mississauga, 3359
Mississauga Rd. Mississauga, ON, L5L 1C6 Canada
2Current address: Harvard Medical School, Massachusetts General Hospital,
Building 114--114 16th Street, Charlestown MA 02129-9142
3Corresponding author: Phone: 905-828-3896; Fax: 905-828-3792;
Email: doday@utm.utoronto.ca
Biochimica Biophysica Acta÷General Subjects, in press
A search of the Dictyostelium genome project database
(http://dictybase.org/db/cgi-bin/blast.pl) with NumA, a protein that
regulates nuclear number, predicted it to be encoded by a larger gene
containing a putative breast cancer carboxy- terminus domain (BRCT).
Using RT-PCR, northern and western blotting we have identified a
differentially expressed, 2318 bp cDNA encoding a protein isoform of
Dictyostelium NumA with an apparent molecular weight of 70 kDa that we
have called NumB. It contains a single amino-terminal BRCT-domain spanning
residueâs 125-201. Starvation of shaking cultures reduces NumA expression
by ~ 88 ± 5.6 %, whereas NumB expression increases ~ 35 ± 3.5 % from
vegetative levels. NumC, a third isoform that is also expressed during
development but not growth, remains to be characterized. These findings
suggest DdNumA is a member of the BRCT-domain containing cell cycle
checkpoint proteins.
Submitted by: Danton O'Day [doday@utm.utoronto.ca]
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[End Dicty News, volume 23, number 8]
