RedoxiBase: A database for ROS homeostasis regulated proteins.
Bruno Savelli1, Qiang Li2, Mark Webber1
1Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326, Castanet-Tolosan, France.
Redox Biology
|June 23, 2019
Summary
RedoxiBase is a new comprehensive database for reactive oxygen species (ROS) homeostasis regulated proteins, replacing PeroxiBase. It includes new protein families and enhanced analysis tools for exploring orthologous sequences and chromosomal localization.
Area of Science:
- Biochemistry
- Bioinformatics
- Genomics
Background:
- The previous PeroxiBase database focused solely on peroxidase families.
- Reactive oxygen species (ROS) homeostasis is crucial in cellular processes.
- A broader scope is needed to encompass diverse ROS-regulating proteins.
Purpose of the Study:
- To introduce RedoxiBase, a comprehensive database for ROS homeostasis regulated proteins.
- To replace and expand upon the functionalities of PeroxiBase.
- To provide advanced tools for analyzing protein families and their evolutionary relationships.
Main Methods:
- Integration of 20 new protein families related to ROS homeostasis.
- Development of new web interface functionalities for data access and analysis.
- Application of the OrthoMCL tool with post-processing for orthologous gene group prediction.
Main Results:
- RedoxiBase now covers a wider range of ROS homeostasis proteins beyond peroxidases.
- Users can access orthologous sequences and view chromosomal localization.
- New visualization tools enable taxonomic and chromosomal distribution analysis of orthogroups.
Conclusions:
- RedoxiBase offers a more comprehensive resource for studying ROS homeostasis.
- Enhanced analysis tools facilitate deeper insights into protein evolution and function.
- The database supports research in various biological and biomedical fields.
More Related Videos
Related Concept Videos
01:02Glucose Homeostasis: Regulation of Blood Glucose
4.0K
Carbohydrates consumed through foods are converted into glucose, a crucial energy source for the body. In the prandial state, high blood glucose levels stimulate the secretion of insulin from the pancreas. Insulin inhibits hepatic glucose production and stimulates glucose uptake and metabolism by muscle and adipose tissue. The excess glucose is converted into glycogen and stored in the liver and muscles.
During fasting, when blood glucose levels are low, the pancreas secretes glucagon. it...
During fasting, when blood glucose levels are low, the pancreas secretes glucagon. it...
4.0K
02:58Regulated Protein Degradation
8.8K
It is vital to regulate the activity of enzymatic as well as non-enzymatic proteins inside the cell. This can be achieved either through creating a balance between their rate of synthesis and degradation or regulating the intrinsic activity of the protein. Both these regulation mechanisms play an essential role in the normal functioning of cells.
Protein degradation plays two important roles in the cells. It helps to protect cells from misfolded or damaged proteins before they lead to a...
Protein degradation plays two important roles in the cells. It helps to protect cells from misfolded or damaged proteins before they lead to a...
8.8K
02:58Regulated Protein Degradation
3.1K
3.1K
02:04Covalently Linked Protein Regulators
8.8K
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....
These groups modify specific amino acids in a protein....
8.8K
02:04Covalently Linked Protein Regulators
2.0K
2.0K
01:16What is Homeostasis?
53.0K
Maintaining homeostasis requires that the body continuously maintain its internal conditions. Each physiological condition has a particular set point, from body temperature to blood pressure to levels of certain nutrients. A set point is the physiological value around which the normal range fluctuates. A normal range is a restricted set of values that is optimally healthful and stable. For example, the set point for normal human body temperature is approximately 37°C (98.6°F).
53.0K