Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions.

Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. Research Abstract Details 

Research Abstract Table of Contents

Jump to the:

Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. Abstract Text:

Hongbo Xie,Slobodan Vucetic,Lilia M Iakoucheva,Christopher J Oldfield,A Keith Dunker,Vladimir N Uversky,Zoran Obradovic,

Identifying relationships between function, amino acid sequence, and protein structure represents a major challenge. In this study, we propose a bioinformatics approach that identifies functional keywords in the Swiss-Prot database that correlate with intrinsic disorder. A statistical evaluation is employed to rank the significance of these correlations. Protein sequence data redundancy and the relationship between protein length and protein structure were taken into consideration to ensure the quality of the statistical inferences. Over 200,000 proteins from the Swiss-Prot database were analyzed using this approach. The predictions of intrinsic disorder were carried out using PONDR VL3E predictor of long disordered regions that achieves an accuracy of above 86%. Overall, out of the 710 Swiss-Prot functional keywords that were each associated with at least 20 proteins, 238 were found to be strongly positively correlated with predicted long intrinsically disordered regions, whereas 302 were strongly negatively correlated with such regions. The remaining 170 keywords were ambiguous without strong positive or negative correlation with the disorder predictions. These functions cover a large variety of biological activities and imply that disordered regions are characterized by a wide functional repertoire. Our results agree well with literature findings, as we were able to find at least one illustrative example of functional disorder or order shown experimentally for the vast majority of keywords showing the strongest positive or negative correlation with intrinsic disorder. This work opens a series of three papers, which enriches the current view of protein structure-function relationships, especially with regards to functionalities of intrinsically disordered proteins, and provides researchers with a novel tool that could be used to improve the understanding of the relationships between protein structure and function. The first paper of the series describes our statistical approach, outlines the major findings, and provides illustrative examples of biological processes and functions positively and negatively correlated with intrinsic disorder.

Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. Publishing Authors By Initials

H Xie,S Vucetic,LM Iakoucheva,CJ Oldfield,AK Dunker,VN Uversky,Z Obradovic,

For similar investigative techniques: genetic techniques: sequence analysis: sequence analysis, protein research abstracts see: investigative techniques: genetic techniques: sequence analysis: sequence analysis, protein research

PUBMED ID PMID:

MEDLINE DATE:

Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. Journal Published:

PUBLICATION TYPE: Research Support, U.S. Gov't,

Journal: Journal of proteome research

VOLUME: 6

Page Numbers: 1882-98

Journal Abbreviation:

ISSN: 1535-3893

DAY: 29

MONTH: 03

YEAR: 2007

Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. Information

Number of References:

LANGUAGE: eng

NlmUniqueID: 101128775

Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. Keywords Mesh Terms:

KEYWORDS: Sequence Analysis, Protein

MESH TERMS: metabolism

Chemical & Substance for Abstract: Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions. Information

Substance Name: Proteins

Registry Number: 0

Grant and Affiliation Information for Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions.

AFFILIATION: Center for Information Science and Technology, Temple University, Philadelphia, Pennsylvania 19122, USA.

Country: United States

AGENCY: United States NLM

GRANT: LM007688-0A1

ACRONYM: LM

MEDLINETA: J Proteome Res

REFSOURCE:

DATABASENAME:

ACCESSION NUMBER:

Number Hits: 0

Functional anthology of intrinsic disorder 1 Biological processes and functions of proteins with long disordered regions Related Publications

• Exploring alternative knowledge representations for protein secondary-structure prediction.
• Functional anthology of intrinsic disorder. 1. Biological processes and functions of proteins with long disordered regions.
• No association between serum 25-hydroxyvitamin D3 level and performance on psychometric tests in NHANES III.
• On-line training of recurrent neural networks with continuous topology adaptation.
• Short Linear Motifs recognized by SH2, SH3 and Ser/Thr Kinase domains are conserved in disordered protein regions.
• [Importance of chronic bacterial infections for the onset and development of atherosclerosis]
• [Radical therapy of rectal carcinoma.]