Journal Article

Identification of Potential Plk1 Targets in a Cell-Cycle Specific Proteome through Structural Dynamics of Kinase and Polo Box-Mediated Interactions

Bibi, Nousheen, Rashid, Sajid, Parveen, Zahida

2013

Overview

Polo like kinase 1 (Plk1) is a key player in orchestrating the wide variety of cell-cycle events ranging from centrosome maturation, mitotic entry, checkpoint recovery, transcriptional control, spindle assembly, mitotic progression, cytokinesis and DNA damage checkpoints recovery. Due to its versatile nature, Plk1 is considered an imperative regulator to tightly control the diverse aspects of the cell cycle network. Interactions among Plk1 polo box domain (PBD) and its putative binding proteins are crucial for the activation of Plk1 kinase domain (KD). To date, only a few substrate candidates have been characterized through the inclusion of both polo box and kinase domain-mediated interactions. Thus it became compelling to explore precise and specific Plk1 substrates through reassessment and extension of the structure-function paradigm. To narrow this apparently wide gap in knowledge, here we employed a thorough sequence search of Plk1 phosphorylation signature containing proteins and explored their structure-based features like conceptual PBD-binding capabilities and subsequent recruitment of KD directed phosphorylation to dissect novel targets of Plk1. Collectively, we identified 4,521 phosphodependent proteins sharing similarity to the consensus phosphorylation and PBD recognition motifs. Subsequent application of filters including similarity index, Gene Ontology enrichment and protein localization resulted in stringent pre-filtering of irrelevant candidates and isolated unique targets with well-defined roles in cell-cycle machinery and carcinogenesis. These candidates were further refined structurally using molecular docking and dynamic simulation assays. Overall, our screening approach enables the identification of several undefined cell-cycle associated functions of Plk1 by uncovering novel phosphorylation targets.

• Publisher: Public Library of Science,Public Library of Science (PLoS)
• Subject: Amino Acid Sequence / Annotations / Binding / Binding Sites / Bioinformatics / Biology / Carcinogenesis / Carcinogens / Cell cycle / Cell Cycle - physiology / Cell Cycle Proteins - chemistry / Cell Cycle Proteins - metabolism / Cell division / Cytokinesis / Deoxyribonucleic acid / DNA / DNA damage / Filtration / Humans / Kinases / Localization / Mammals / Models, Molecular / Molecular docking / Molecular Sequence Data / Ontology / Phosphorylation / Polo / Polo-Like Kinase 1 / Protein Binding / Protein Conformation / Protein Interaction Domains and Motifs / Protein Interaction Mapping / Protein Interaction Maps / Protein Serine-Threonine Kinases - chemistry / Protein Serine-Threonine Kinases - metabolism / Proteins / Proteome - metabolism / Proteomes / Proteomics / Proto-Oncogene Proteins - chemistry / Proto-Oncogene Proteins - metabolism / Recovery / Recruitment / Sequence Alignment / Signal transduction / Similarity / Structure-function relationships / Substrate Specificity / Substrates / Target recognition / Transcription / Transcription (Genetics)