Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Search research articles

Related Experiment Videos

3Dee: a database of protein structural domains.

A S Siddiqui¹, U Dengler, G J Barton

¹University of Oxford, Laboratory of Molecular Biophysics, The Rex Richards Building, South Parks Road, Oxford OX1 3QU, UK.

Bioinformatics (Oxford, England)

|March 10, 2001

Summary

The 3Dee database provides a comprehensive repository for protein structural domains. It organizes domain information hierarchically and offers non-redundant sequence and structure sets for research.

Related Concept Videos

You might also read

Related Articles

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

Sort by

Same author

Identifying joint-specific gait mechanisms causing impaired gait in alkaptonuria patients.

Gait & posture·2021

Same author

Leaving hip rotation out of a conventional 3D gait model improves discrimination of pathological gait in cerebral palsy: A novel neural network analysis.

Gait & posture·2019

Same author

Data on items of AKUSSI in Alkaptonuria collected over three years from the United Kingdom National Alkaptonuria Centre and the impact of nitisinone.

Data in brief·2018

Same author

Nitisinone arrests ochronosis and decreases rate of progression of Alkaptonuria: Evaluation of the effect of nitisinone in the United Kingdom National Alkaptonuria Centre.

Molecular genetics and metabolism·2018

Same author

Substrate and flow characteristics associated with White Sturgeon recruitment in the Columbia River Basin.

Heliyon·2018

Same author

A marker based kinematic method of identifying initial contact during gait suitable for use in real-time visual feedback applications.

Gait & posture·2012

Area of Science:

Structural Biology
Bioinformatics

Background:

The 3Dee database serves as a centralized repository for protein structural domain information.
It is accessible online at http://barton.ebi.ac.uk/servers/3Dee.html.

Purpose of the Study:

To present the structure and content of the 3Dee database.
To highlight its utility in organizing and accessing protein domain data.

Main Methods:

The database integrates and organizes protein domain definitions.
It establishes hierarchical relationships based on sequence and structure.
Non-redundant sets of sequences and structures are curated.

Main Results:

3Dee stores alternative domain definitions for proteins.

Related Experiment Videos

Domains are organized into sequence and structural hierarchies.

Multiple structure alignments for domain families are included.

The database allows regeneration of previous versions.

Conclusions:

3Dee offers a valuable resource for researchers studying protein domain organization.
Its comprehensive data and hierarchical structure facilitate structural biology and bioinformatics research.