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OJBTM
Online
Journal of Bioinformatics ©
Murthy
BSN, Pandit MW, Singh L.
Centre for Cellular and Molecular Biology,
ABSTRACT
Murthy BSN,
Pandit MW, Singh L., Prediction of the putative function of mouse WDR13 protein, Onl J Bioinform., 9 (1): 60-77,
2008. Literature reports large number of WD-repeat proteins involved
in variety of functions, although only few of them are characterized for their
true physiological roles. As these proteins function in multi-protein
complexes, it is rather difficult to individually express, purify, fold and
functionally characterize these proteins. Thus, novel approaches are imperative
in assessing their putative physiological functions. Evolutionary conservation
of the protein sequence-structure and function is well known. Realizing that
WDR13 is an unstable protein and expecting that protein instability could be an
evolutionarily conserved property, we have analyzed a set of WD-repeat proteins
for their Protein Instability Index and sequence motifs present in them,
employing bioinformatics, and using this information predicted the
physiological functions of WDR13. Nearly 65% of WD-repeat proteins are unstable
and they apparently form functional clusters according to PII. N-terminal of
WDR13 possesses novel nuclear localization signal and SOCS-homologous sequence,
which suggested that WDR13 putatively participates in E3 ubiquitin ligase ECS
complex known to associate with the Ubiquitin Proteasome System. BLAST of the
Database of Interacting Proteins revealing sequence homology of WDR13 with Fbw7
(product of hCDC4), another component of E3 ubiquitin ligase (SCF) complex, on
one side and Eukaryotic Linear Motif analysis identifying presence of
functional domains necessary for participation in ubiquitin ligase on the
other, strongly suggests that WDR13 is the ECS component, functionally
complimentary to Fbw7, which participated in the SCF complex. Above results suggest
a new dimension of relation between primary sequences of proteins influencing
their own fate as well as of the cells. Supplementary Data (Table S): Stable
and unstable WD-repeat proteins available in the literature are shown in Table
SA and SB along with their calculated Protein Instability Index (PII) values,
identified / reported function, accession number and the organism.
Key words:
WD-repeat protein; Memory related protein; Suppressor of cytokine signaling;
SOCS; Elongin A; VHL protein; ECS Complex; SCF
Complex; Ubiquitin ligase; Ubiquitin Proteasome System
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