KRISHNAN Arun

Substrate Specificity of Cyclins Determined by Electrostatics

Published date : 06 Jul 2007

Cyclin dependent kinases (CDK) associate with cyclins to regulate cell cycle progression and gene transcription by phosphorylating key proteins. The different cyclin-CDK complexes display differences in substrate specificities with substrates binding across a shallow, hydrophobic, substrate-binding pocket known as the cyclin groove. However the mechanism underlying this differential substrate recognition remains largely unknown and cannot be explained merely on the basis of sequence variability.

type
Journal Paper
journal
Cell Cycle. Volume 6, Issue 18 September 15, 2007, Pages 2219 - 2226 DOI: 10.4161/cc.6.18.4706
Impact Factor
3.214

Protein subcellular localization prediction for Gram-negative bacteria using amino acid subalphabets and a combination of multiple support vector machines

Published date : 13 Jul 2005

BACKGROUND:

Predicting the subcellular localization of proteins is important for determining the function of proteins. Previous works focused on predicting protein localization in Gram-negative bacteria obtained good results. However, these methods had relatively low accuracies for the localization of extracellular proteins. This paper studies ways to improve the accuracy for predicting extracellular localization in Gram-negative bacteria.

type
Journal Paper
journal
BMC Bioinformatics 2005 Jul 13;6:174, doi:10.1186/1471-2105-6-174
Impact Factor
3.43

CMDWave: Conserved motifs detection using wavelets

Published date : 08 Jul 2005

CMDWave (Conserved Motif Detection using WAVElets) is a web server that predicts conserved motifs in protein sequences. A set of query protein sequences are first aligned using ClustalW to obtain equal sized sequences. CMDWave then converts the sequences into a numerical representation using electron-ion interaction potential (EIIP). This is followed by a wavelet decomposition and reconstruction. A new similarity metric along with thresholding is then used to identify conserved motifs across all the query sequences. Users need not specify the number of motifs to be identified.

type
Journal Paper
journal
In Silico Biology. 2005;5(4):415-8
Impact Factor
NIL