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PMID: 20360767 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

I-TASSER: a unified platform for automated protein structure and function prediction.

Nature protocols ·Vol. 5 ·No. 4 ·2010-04-00 ·Pages 725-38

Roy A, Kucukural A, Zhang Y

Abstract

The iterative threading assembly refinement (I-TASSER) server is an integrated platform for automated protein structure and function prediction based on the sequence-to-structure-to-function paradigm. Starting from an amino acid sequence, I-TASSER first generates three-dimensional (3D) atomic models from multiple threading alignments and iterative structural assembly simulations. The function of the protein is then inferred by structurally matching the 3D models with other known proteins. The output from a typical server run contains full-length secondary and tertiary structure predictions, and functional annotations on ligand-binding sites, Enzyme Commission numbers and Gene Ontology terms. An estimate of accuracy of the predictions is provided based on the confidence score of the modeling. This protocol provides new insights and guidelines for designing of online server systems for the state-of-the-art protein structure and function predictions. The server is available at http://zhanglab.ccmb.med.umich.edu/I-TASSER.

MeSH Terms
Amino Acid Sequence Computer Simulation Databases, Protein/statistics & numerical data Internet Models, Molecular Online Systems Proteins/chemistry,genetics,physiology Sequence Alignment/statistics & numerical data Structural Homology, Protein
Chemicals
Proteins
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Roy Ambrish
Center for Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, Michigan, USA.
Kucukural Alper
Zhang Yang
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Article Info
Journal
Nature protocols
Abbr.
Nat Protoc
ISSN
1750-2799
DOI
10.1038/nprot.2010.5
Published
2010-04-00
Epub
2010-00-25
Pages
725-38
Language
English
Region
England
NLM ID
101284307
PMCID
PMC2849174
Subset
IM
Grants
NIGMS NIH HHS · R01 GM084222 · United States
NIGMS NIH HHS · R01 GM083107-02 · United States
NIGMS NIH HHS · GM083107 · United States
NIGMS NIH HHS · R01 GM083107 · United States
NIGMS NIH HHS · R01 GM084222-01A1 · United States
NIGMS NIH HHS · GM084222 · United States
External Links
PubMed source DOI: 10.1038/nprot.2010.5 PMC Full Text View journal details
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