Jove
Visualize
联系我们
JoVE
x logofacebook logolinkedin logoyoutube logo
关于 JoVE
概览领导团队博客JoVE 帮助中心
作者
出版流程编辑委员会范围与政策同行评审常见问题投稿
图书馆员
用户评价订阅访问资源图书馆顾问委员会常见问题
研究
JoVE JournalMethods CollectionsJoVE Encyclopedia of Experiments存档
教育
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab Manual教师资源中心教师网站
使用条款与条件
隐私政策
政策

相关概念视频

Nucleic Acid Structure01:25

Nucleic Acid Structure

8.4K
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.
DNA Structure
DNA...
8.4K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

6.8K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
6.8K
Protein and Protein Structures02:15

Protein and Protein Structures

18.3K
18.3K
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

20.5K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
20.5K
Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

4.6K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
4.6K
Protein and Protein Structure02:15

Protein and Protein Structure

86.7K
Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme...
86.7K

您也可能阅读

相关文章

通过共同作者、期刊和引用图与本文相关的文章。

排序
Same author

Future trends and the role of artificial intelligence in pharmaceutical project management.

Annales pharmaceutiques francaises·2026
Same author

Effects of growth factor application on germ cell architecture and oxidative stress handling in a rat model of testicular torsion-detorsion.

Journal of pediatric surgery·2026
Same author

Cascade PSI-BLAST 2.0: a fast-searching parallelized remote homology detection tool and development of Cascade web server 2.0.

BMC bioinformatics·2026
Same author

GRAYU: graph-based database integrating Ayurvedic formulations, medicinal plants, phytochemicals and diseases.

Frontiers in pharmacology·2026
Same author

Exploration of Natural Products for Targeting IDH1/2 Mutations in Acute Myeloid Leukemia Through Ligand-Based Pharmacophore Screening, Docking, ADME-T, and Molecular Dynamic Simulation Approaches.

Bioinformatics and biology insights·2025
Same author

Computational Analyses of Bifurcated Inter-Protein Interactions in Protein-Protein Assemblies Reveal Their Pivotal Role in Conferring Stability.

Proteins·2025

相关实验视频

Updated: Jan 11, 2026

The ITS2 Database
16:17

The ITS2 Database

Published on: March 12, 2012

32.3K

PASS2:更新基于结构的序列对齐数据库.

Revathy Menon1, Soumya Nayak1, Rama Rajesh2

  • 1National Centre for Biological Sciences (Tata Institute of Fundamental Research), GKVK Campus, Bellary Road, Bangalore, Karnataka 560065, India.

Database : the journal of biological databases and curation
|November 13, 2025
PubMed
概括

作为结构超级家族组织的蛋白质对齐 (PASS2) 数据库现在包括26,690个蛋白质域的基于结构的序列对齐. 此更新增强了使用最新的蛋白质结构分类扩展 (SCOPe) 框架的进化建模和蛋白质家族识别.

更多相关视频

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

16.0K
Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

16.4K

相关实验视频

Last Updated: Jan 11, 2026

The ITS2 Database
16:17

The ITS2 Database

Published on: March 12, 2012

32.3K
Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
09:51

Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web

Published on: July 16, 2017

16.0K
Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
08:57

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

Published on: August 14, 2018

16.4K

科学领域:

  • 结构生物学是结构生物学.
  • 生物信息学是一种生物信息学.
  • 计算生物学是一种计算生物学.

背景情况:

  • 蛋白质序列对齐对于理解蛋白质进化和功能至关重要.
  • 由于其低序列相同性,对与远距离相关的蛋白质进行对齐是具有挑战性的.
  • 结构信息可以指导分离的蛋白质序列的准确对齐.

研究的目的:

  • 更新和增强作为结构超级家族组织的蛋白质对齐 (PASS2) 数据库.
  • 为超级家族内的蛋白质域提供基于结构的序列对齐.
  • 整合新的功能,以改善蛋白质关系和相互作用的分析.

主要方法:

  • 使用蛋白质结构分类扩展 (SCOPe) 框架 (版本2.08).
  • 对蛋白质域进行结构引导的序列对齐,其序列相同性<40%.
  • 采用k-means集群来划分分歧的超级家族和确定保存的相互作用.

主要成果:

  • PASS2.8数据库包含了26690个蛋白质域在2058个超级家族中的对齐.
  • 包括保存的二次结构图案,隐藏的马尔科夫模型 (HMM) 和保存的残留物.
  • 添加了拓图,潜在交互体,并更新了保守交互方法.

结论:

  • 更新的PASS2数据库为分析蛋白质超级家族提供了有价值的基于结构的对齐和特征.
  • 促进进化研究,蛋白质功能预测和实验设计.
  • 这些新功能提供了对蛋白质域关系和相互作用的更深入的见解.