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Phosphorylation01:02

Phosphorylation

51.1K
The addition or removal of phosphate groups from proteins is the most common chemical modification that regulates cellular processes. These modifications can affect the structure, activity, stability, and localization of proteins within cells as well as their interactions with other proteins.
During phosphorylation, protein kinases transfer the terminal phosphate group of ATP to specific amino acid side chains of substrate proteins. Serine, threonine, and tyrosine are the most commonly...
51.1K
Protein Kinases and Phosphatases02:54

Protein Kinases and Phosphatases

13.4K
Proteins undergo chemical modifications that trigger changes in the charge, structure, and conformation of the proteins. Phosphorylation, acetylation, glycosylation, nitrosylation, ubiquitination, lipidation, methylation, and proteolysis are various protein modifications that regulate protein activity. Such modifications are usually enzyme-driven.
Protein kinases
Many proteins in the cell are regulated by phosphorylation, the addition of a phosphate group. A family of enzymes called kinases...
13.4K
Covalently Linked Protein Regulators02:04

Covalently Linked Protein Regulators

7.0K
Proteins can undergo many types of post-translational modifications, often in response to changes in their environment. These modifications play an important role in the function and stability of these proteins. Covalently linked molecules include functional groups, such as methyl, acetyl, and phosphate groups, and also small proteins, such as ubiquitin. There are around 200 different types of covalent regulators that have been identified.
These groups modify specific amino acids in a protein....
7.0K
Protein Networks02:26

Protein Networks

4.1K
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
4.1K
Amplifying Signals via Enzymatic Cascade01:22

Amplifying Signals via Enzymatic Cascade

8.7K
When a ligand binds to a cell-surface receptor, the receptor's intracellular domain changes shape, which may either activate its enzyme function or allow its binding to other molecules. The initial signal is amplified by most signal transduction pathways. This means that a single ligand molecule can activate multiple molecules of a downstream target. Proteins that relay a signal are most commonly phosphorylated at one or more sites, activating or inactivating the protein. Kinases catalyze...
8.7K
Phosphoinositides and PIPs01:42

Phosphoinositides and PIPs

8.7K
Phosphoinositides are a group of phospholipids containing a glycerol backbone with two fatty acid chains and a phosphate attached to a myoinositol sugar ring. The inositol head group extends into the cytoplasm, where it is modified by adding phosphate groups to form phosphatidylinositol phosphates or PIPs.
Different phosphoinositides are synthesized and recruited on the cytosolic face of the plasma membrane. The localization of specific phosphoinositides concentrated in separate membrane...
8.7K

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Updated: Sep 7, 2025

A Mass Spectrometry-Based Approach to Identify Phosphoprotein Phosphatases and their Interactors
10:17

A Mass Spectrometry-Based Approach to Identify Phosphoprotein Phosphatases and their Interactors

Published on: April 29, 2022

2.5K

Functional characterization of co-phosphorylation networks.

Marzieh Ayati1, Serhan Yılmaz2, Mark R Chance3,4,5

  • 1Department of Computer Science, University of Texas Rio Grande Valley, Edinburg, TX 78531, USA.

Bioinformatics (Oxford, England)
|June 22, 2022
PubMed
Summary

Co-phosphorylation (Co-P) analysis reveals correlated phosphorylation sites across biological states. This method accurately predicts sites on the same pathway or kinase targets, enhancing understanding of cellular signaling networks.

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Last Updated: Sep 7, 2025

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Area of Science:

  • Molecular Biology
  • Biochemistry
  • Systems Biology

Background:

  • Protein phosphorylation is a key regulatory mechanism in cellular signaling, with up to 70% of human proteins being phosphorylated.
  • Characterizing phosphorylation dynamics is crucial for understanding diverse biological processes and diseases.
  • Mass spectrometry technologies enable high-throughput screening and quantification of thousands of phosphorylation sites.

Purpose of the Study:

  • To comprehensively investigate the concept of co-phosphorylation (Co-P), defined as correlated phosphorylation of phosphosites across biological states.
  • To assess the functional relevance of Co-P using integrated phosphoproteomics and functional data.
  • To establish Co-P as a resource for analyzing phosphoproteins in a network context.

Main Methods:

  • Integration of nine publicly available phosphoproteomics datasets from various diseases.
  • Utilized functional data including sequence, evolutionary histories, kinase, and pathway annotations.
  • Analysis of correlated phosphorylation patterns across different biological states.

Main Results:

  • Functionally associated phosphosites consistently exhibit significant positive or negative Co-P across diverse studies.
  • Co-P accurately predicts phosphosites within the same pathway or targeted by the same kinase.
  • Demonstrated the utility of Co-P in analyzing phosphoproteins within a network context.

Conclusions:

  • Co-phosphorylation is a valuable metric for understanding functional relationships between phosphosites.
  • Co-P analysis enhances the interpretation of phosphoproteomics data, particularly in disease contexts.
  • This approach advances the study of cellular signaling and its dysregulation.