Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Taxonomy01:31

Taxonomy

Taxonomy is the science of defining and naming groups of biological organisms based on shared characteristics. It uses a hierarchy of increasingly inclusive categories with Latin names. The smallest units of taxonomy, species and genus, are used to assign a formal, taxonomic name to each species in a system. This classification system, referred to as binomial nomenclature, was formalized by Carolus Linnaeus in the 18th century.
Hierarchy of Taxonomy
The hierarchy that Carolus Linnaeus first...
Modern Molecular Taxonomy01:29

Modern Molecular Taxonomy

Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
Applications of Molecular Taxonomy01:20

Applications of Molecular Taxonomy

Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
Phylogenetic Trees03:21

Phylogenetic Trees

Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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...
Structural Protein Function01:56

Structural Protein Function

Structural proteins are a category of proteins responsible for functions ranging from cell shape and movement to providing support to major structures such as bones, cartilage, hair, and muscles. This group includes proteins such as collagen, actin, myosin, and keratin.
Collagen, the most abundant protein in mammals, is found throughout the body. In connective tissue, such as skin, ligaments, and tendons, it provides tensile strength and elasticity.  In bones and teeth, it mineralizes to form...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Chart builder: an interactive tool for user driven data visualization in the electron microscopy data bank.

Frontiers in bioinformatics·2026
Same author

A systematic exploration of digital biomarkers for the detection of depressive episodes in bipolar disorder.

Npj mental health research·2026
Same author

Pharmacogenomics of antiepileptic drug mood stabilizer treatment response in bipolar disorder: A MoStGen Consortium study.

Molecular psychiatry·2026
Same author

Using multi-trait polygenic scores to predict lithium responsiveness in patients with bipolar disorder.

medRxiv : the preprint server for health sciences·2026
Same author

Data-driven symptom dimensions reveal familial patterns in bipolar disorder.

Journal of affective disorders·2025
Same author

EMICSS: added-value annotations for EMDB entries.

Bioinformatics advances·2025
Same journal

Correction to 'New origin firing is inhibited by APC/CCdh1 activation in S-phase after severe replication stress'.

Nucleic acids research·2026
Same journal

VeloRM: disentangling pre- and post-splicing RNA modification dynamics at single-cell resolution.

Nucleic acids research·2026
Same journal

Accessibility of telomeric overhangs to stabilizing small-molecule ligands.

Nucleic acids research·2026
Same journal

Multivalent interactions mediate SNAIL transcription factor stimulation of the nucleosome deacetylase activity of the CoREST complex.

Nucleic acids research·2026
Same journal

Genome-wide mapping of DNA G-quadruplexes in Trypanosoma brucei chromatin reveals enrichment in coding regions and transcription start sites.

Nucleic acids research·2026
Same journal

Correction to 'The Gene Ontology knowledgebase in 2026'.

Nucleic acids research·2026
See all related articles

Related Experiment Video

Updated: May 16, 2026

The ITS2 Database
16:17

The ITS2 Database

Published on: March 12, 2012

SIFTS: Structure Integration with Function, Taxonomy and Sequences resource.

Sameer Velankar1, José M Dana, Julius Jacobsen

  • 1Protein Data Bank in Europe, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. sameer@ebi.ac.uk

Nucleic Acids Research
|December 4, 2012
PubMed
Summary
This summary is machine-generated.

The Structure Integration with Function, Taxonomy and Sequences (SIFTS) resource links protein data from the Protein Data Bank (PDB) with UniProt. This ensures bioinformatics tools have current cross-references for protein sequence and structure data.

More Related Videos

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
07:49

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group

Published on: August 16, 2017

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

Related Experiment Videos

Last Updated: May 16, 2026

The ITS2 Database
16:17

The ITS2 Database

Published on: March 12, 2012

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group
07:49

Creating and Applying a Reference to Facilitate the Discussion and Classification of Proteins in a Diverse Group

Published on: August 16, 2017

A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

Area of Science:

  • Bioinformatics
  • Structural Biology
  • Proteomics

Background:

  • The Protein Data Bank (PDB) and UniProt are crucial databases for protein information.
  • Maintaining accurate cross-references between these resources is essential for data integration.

Purpose of the Study:

  • To describe the Structure Integration with Function, Taxonomy and Sequences (SIFTS) resource.
  • To highlight the semi-automated process for updating cross-references between PDB and UniProt entries.

Main Methods:

  • A semi-automated process developed by the Protein Data Bank in Europe (PDBe) and UniProt.
  • Regular updates synchronized with weekly PDB releases.
  • Data storage in the SIFTS database and export in XML format.

Main Results:

  • SIFTS provides up-to-date cross-references for all protein chains in PDB entries.
  • Includes links to other biological resources like Pfam, SCOP, CATH, GO, InterPro, and NCBI taxonomy.
  • Data is accessible via FTP for use in various bioinformatics resources.

Conclusions:

  • SIFTS facilitates seamless integration of protein structure and sequence data.
  • Enables bioinformatics resources to provide users with current, interconnected biological information.
  • Strengthens the utility of PDB and UniProt data through robust cross-referencing.