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Literature DB >> 27726338

K-CLASP: A Tool to Identify Phosphosite Specific Kinases and Interacting Proteins.

Pavithra M Dedigama-Arachchige¹, Mary Kay H Pflum¹.

Abstract

Few methods are available to discover the cellular kinase that phosphorylates a specific amino acid, or phosphosite, on a protein. In addition, identifying the associated proteins bound near a phosphosite during phosphorylation would provide insights into cell biology and signaling. Here, we report K-CLASP (Kinase Catalyzed CrossLinking And Streptavidin Purification) as a method for both phosphosite-specific kinase identification and the discovery of kinase interacting proteins. K-CLASP offers a powerful tool to discover unanticipated protein-protein interactions in phosphorylation-mediated biological events.

Entities: CellLine Chemical Disease Gene Species

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Year: 2016 PMID： 27726338 PMCID： PMC5481203 DOI： 10.1021/acschembio.6b00289

Source DB: PubMed Journal: ACS Chem Biol ISSN： 1554-8929 Impact factor: 5.100

27 in total

Review 1. The protein kinase complement of the human genome.

Authors: G Manning; D B Whyte; R Martinez; T Hunter; S Sudarsanam
Journal: Science Date: 2002-12-06 Impact factor: 47.728

2. A mechanism-based cross-linker for the identification of kinase-substrate pairs.

Authors: Dustin J Maly; Jasmina A Allen; Kevan M Shokat
Journal: J Am Chem Soc Date: 2004-08-04 Impact factor: 15.419

3. Tau-driven 26S proteasome impairment and cognitive dysfunction can be prevented early in disease by activating cAMP-PKA signaling.

Authors: Natura Myeku; Catherine L Clelland; Sheina Emrani; Nikolay V Kukushkin; Wai Haung Yu; Alfred L Goldberg; Karen E Duff
Journal: Nat Med Date: 2015-12-21 Impact factor: 53.440

4. Integration of biological networks and gene expression data using Cytoscape.

Authors: Melissa S Cline; Michael Smoot; Ethan Cerami; Allan Kuchinsky; Nerius Landys; Chris Workman; Rowan Christmas; Iliana Avila-Campilo; Michael Creech; Benjamin Gross; Kristina Hanspers; Ruth Isserlin; Ryan Kelley; Sarah Killcoyne; Samad Lotia; Steven Maere; John Morris; Keiichiro Ono; Vuk Pavlovic; Alexander R Pico; Aditya Vailaya; Peng-Liang Wang; Annette Adler; Bruce R Conklin; Leroy Hood; Martin Kuiper; Chris Sander; Ilya Schmulevich; Benno Schwikowski; Guy J Warner; Trey Ideker; Gary D Bader
Journal: Nat Protoc Date: 2007 Impact factor: 13.491

Review 5. Protein kinases and phosphatases: the yin and yang of protein phosphorylation and signaling.

Authors: T Hunter
Journal: Cell Date: 1995-01-27 Impact factor: 41.582

6. GeneMANIA Cytoscape plugin: fast gene function predictions on the desktop.

Authors: J Montojo; K Zuberi; H Rodriguez; F Kazi; G Wright; S L Donaldson; Q Morris; G D Bader
Journal: Bioinformatics Date: 2010-10-05 Impact factor: 6.937

7. Clickable 5'-γ-ferrocenyl adenosine triphosphate bioconjugates in kinase-catalyzed phosphorylations.

Authors: Nan Wang; Zhe She; Yen-Chun Lin; Sanela Martić; David J Mann; Heinz-Bernhard Kraatz
Journal: Chemistry Date: 2015-02-09 Impact factor: 5.236

8. Cre transgene results in global attenuation of the cAMP/PKA pathway.

Authors: L Gangoda; M Doerflinger; Y Y Lee; A Rahimi; N Etemadi; D Chau; L Milla; L O'Connor; H Puthalakath
Journal: Cell Death Dis Date: 2012-08-09 Impact factor: 8.469

9. Biguanides suppress hepatic glucagon signalling by decreasing production of cyclic AMP.

Authors: Russell A Miller; Qingwei Chu; Jianxin Xie; Marc Foretz; Benoit Viollet; Morris J Birnbaum
Journal: Nature Date: 2013-01-06 Impact factor: 49.962

10. GPS: a comprehensive www server for phosphorylation sites prediction.

Authors: Yu Xue; Fengfeng Zhou; Minjie Zhu; Kashif Ahmed; Guoliang Chen; Xuebiao Yao
Journal: Nucleic Acids Res Date: 2005-07-01 Impact factor: 16.971

8 in total

1. Identification of PP1-Gadd34 substrates involved in the unfolded protein response using K-BIPS, a method for phosphatase substrate identification.

Authors: Pavithra M Dedigama-Arachchige; Nuwan P N Acharige; Mary Kay H Pflum
Journal: Mol Omics Date: 2018-04-16

K-CLASP: A Tool to Identify Phosphosite Specific Kinases and Interacting Proteins.

Review 1. The protein kinase complement of the human genome.

2. A mechanism-based cross-linker for the identification of kinase-substrate pairs.

3. Tau-driven 26S proteasome impairment and cognitive dysfunction can be prevented early in disease by activating cAMP-PKA signaling.

4. Integration of biological networks and gene expression data using Cytoscape.

Review 5. Protein kinases and phosphatases: the yin and yang of protein phosphorylation and signaling.

6. GeneMANIA Cytoscape plugin: fast gene function predictions on the desktop.

7. Clickable 5'-γ-ferrocenyl adenosine triphosphate bioconjugates in kinase-catalyzed phosphorylations.

8. Cre transgene results in global attenuation of the cAMP/PKA pathway.

9. Biguanides suppress hepatic glucagon signalling by decreasing production of cyclic AMP.

10. GPS: a comprehensive www server for phosphorylation sites prediction.

1. Identification of PP1-Gadd34 substrates involved in the unfolded protein response using K-BIPS, a method for phosphatase substrate identification.

Review 2. Photoaffinity labelling strategies for mapping the small molecule-protein interactome.

3. Chemoproteomic Profiling Uncovers CDK4-Mediated Phosphorylation of the Translational Suppressor 4E-BP1.

4. Identification of Kinases and Interactors of p53 Using Kinase-Catalyzed Cross-Linking and Immunoprecipitation.

5. EGFR phosphorylates HDAC1 to regulate its expression and anti-apoptotic function.

6. An Affinity-Based, Cysteine-Specific ATP Analog for Kinase-Catalyzed Crosslinking.

7. l-Lactate Dehydrogenase Identified as a Protein Tyrosine Phosphatase 1B Substrate by Using K-BIPS.

8. Kinase inhibition profiles as a tool to identify kinases for specific phosphorylation sites.