Coder Social home page Coder Social logo

sisyphus's Introduction

Sisyphus

An archive of data for the legacy Sisyphus project

Image of Sisyphus

If you find the data useful , please cite :
Andreeva A, Prlić A, Hubbard TJ, Murzin AG.
SISYPHUS--structural alignments for proteins with non-trivial relationships.
Nucleic Acids Res. 2007 Jan;35(Database issue):D253-9.
doi: 10.1093/nar/gkl746. Epub 2006 Oct 26. PMID: 17068077; PMCID: PMC1635320.


With the increasing amount of structural data, the number of homologous protein structures bearing topological irregularities is steadily growing. These include proteins with circular permutations, segment-swapping, context-dependent folding or chameleon sequences that can adopt alternative secondary structures. Most of these non-trivial protein relationships are readily identified during the systematic analysis in the SCOP (Structural Classification of Proteins) database. However, their automatic identification using the existing computational tools still remains difficult or impossible. Such non-trivial cases of protein relationships are known to pose a problem to the multiple alignment algorithms and to impede the comparative modeling studies. They support a new emerging concept of evolutionary changeable protein fold and thus create practical difficulties to the hierarchical protein structural classifications.


To facilitate the understanding and to provide a comprehensive annotation of proteins with such non-trivial structural relationships we have created SISYPHUS, a compendium to the SCOP database.


The SISYPHUS database contains a collection of manually curated structural alignments and their interrelationships. Each multiple alignment within the SISYPHUS database consists of structurally similar regions common to a group of proteins. These regions range from oligomeric biological units, or individual domains to fragments of different size representing either internal structural repeats or motifs common to structurally distinct proteins. The SISYPHUS multiple alignments are displayed with SPICE, a browser that provides an integrated view of protein sequences, structures and their annotations.


Note: This dataset is from before the PDB remediation efforts, as such there may be some entries with inconsistent chain IDs.

sisyphus's People

Contributors

andreasprlic avatar

Stargazers

 avatar

Watchers

 avatar

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.