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Related Concept Videos

Proteomics01:33

Proteomics

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A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
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Protein Networks02:26

Protein Networks

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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.
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Nucleic Acid Structure01:25

Nucleic Acid Structure

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The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms  a 5′ to 3′ phosphodiester linkage.
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MicroRNAs01:22

MicroRNAs

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MicroRNA (miRNA) are short, regulatory RNA transcribed from introns—non-coding regions of a gene—or intergenic regions—stretches of DNA present between genes. Several processing steps are required to form biologically active, mature miRNA. The initial transcript, called primary miRNA (pri-mRNA), base-pairs with itself forming a stem-loop structure. Within the nucleus, an endonuclease enzyme, called Drosha, shortens the stem-loop structure into hairpin-shaped pre-miRNA. After...
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Protein Families02:47

Protein Families

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Protein families are groups of homologous proteins; that is, they have similarities in amino acid sequences and three-dimensional structures. Protein families usually occur because of gene duplication, where an additional copy of a gene is inserted into the genome of an organism.   Mutations that change the amino acids but still allow the protein to be properly synthesized, will lead to new protein family members.   If these new proteins contain similar amino acids in key...
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Protein-protein Interfaces02:04

Protein-protein Interfaces

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Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
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Related Experiment Video

Updated: Jun 25, 2025

An Integrated Approach for Microprotein Identification and Sequence Analysis
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An Integrated Approach for Microprotein Identification and Sequence Analysis

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MicroProteinDB: A database to provide knowledge on sequences, structures and function of ncRNA-derived microproteins.

Yinan Liang1, Dezhong Lv2, Kefan Liu3

  • 1The First Affiliated Hospital, Harbin Medical University, Harbin, 150001, China.

Computers in Biology and Medicine
|May 31, 2024
PubMed
Summary

MicroProteinDB is a new database that provides comprehensive information on microproteins derived from non-coding RNAs (ncRNAs). It aids in the retrieval and analysis of these vital biological molecules using deep learning prediction algorithms.

Keywords:
ConformationConservationInteractionKnowledgeMicroproteinncRNA

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Area of Science:

  • Genomics
  • Proteomics
  • Bioinformatics

Background:

  • Omics technologies have advanced the understanding of microproteins encoded by non-coding RNAs (ncRNAs).
  • These microproteins play crucial roles in cellular functions.
  • Their study is essential for comprehending complex biological systems.

Purpose of the Study:

  • To develop MicroProteinDB, a comprehensive database for microproteins encoded by ncRNAs.
  • To provide tools for retrieval and analysis of predicted and validated microproteins.
  • To facilitate research on ncRNA-derived microproteins.

Main Methods:

  • Utilized deep learning prediction algorithms for microprotein identification.
  • Integrated computational predictions with experimental validation.
  • Developed a database with five major analytical modules.

Main Results:

  • MicroProteinDB offers extensive data on microproteins, including physicochemical properties, structures, and interactions.
  • The database documents inter-species conservation and family domains.
  • It provides visualization tools for enhanced data analysis.

Conclusions:

  • MicroProteinDB serves as a valuable resource for researchers studying ncRNA-derived microproteins.
  • The database aids in the retrieval and analysis of microprotein information.
  • It supports the investigation of microprotein functions and roles in biological landscapes.