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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, Online J Bioinformatics, 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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