Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences.

Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Research Abstract Details 

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Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Abstract Text:

Maria V Karouzou,Yannis Spyropoulos,Vassiliki A Iconomidou,R S Cornman,Stavros J Hamodrakas,Judith H Willis,

The majority of cuticular protein sequences identified to date from a diversity of arthropods have a conserved region known as the Rebers and Riddiford Consensus (R&R Consensus). This consensus region has been used to query the whole genome sequence of Drosophila melanogaster. One hundred one putative cuticular proteins have been annotated. Of these, 29 had been annotated previously, and for several their authenticity as cuticular proteins had been verified by protein sequence data from isolated cuticles or by localization of their transcripts in epidermis when cuticle synthesis was occurring. The original names have been retained, and the 72 newly annotated proteins have been given names beginning with Cpr followed by the chromosomal band in which the gene is located. Proteins with the R&R Consensus can be split into three groups RR-1, RR-2 and RR-3, with some correlation to the type or region of the cuticle in which they occur. Previous classification was manual and subjective. We now have developed a tool using profile hidden Markov models that allows more objective classification. We describe the development and verification of the validity of this tool that is available at the cuticleDB website http://bioinformatics2.biol.uoa.gr/cuticleDB/index.jsp.

Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Publishing Authors By Initials

MV Karouzou,Y Spyropoulos,VA Iconomidou,RS Cornman,SJ Hamodrakas,JH Willis,

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Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Journal Published:

PUBLICATION TYPE: Validation Studies

Journal: Insect biochemistry and molecular biology

VOLUME: 37

Page Numbers: 754-60

Journal Abbreviation: Insect Biochem. Mol. Biol.

ISSN: 0965-1748

DAY: 19

MONTH: 03

YEAR: 2007

Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Information

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LANGUAGE: eng

NlmUniqueID: 9207282

Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Keywords Mesh Terms:

KEYWORDS: Software

MESH TERMS: methods

Chemical & Substance for Abstract: Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences. Information

Substance Name: Drosophila Proteins

Registry Number: 0

Grant and Affiliation Information for Drosophila cuticular proteins with the R&R Consensus: annotation and classification with a new tool for discriminating RR-1 and RR-2 sequences.

AFFILIATION: Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens, Athens 157 01, Greece.

Country: England

AGENCY: United States NIAID

GRANT: AI55624

ACRONYM: AI

MEDLINETA: Insect Biochem Mol Biol

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