Literature DB >> 14668408

Compositional biases and polyalanine runs in humans.

Julie Cocquet1, Elfride De Baere, Sandrine Caburet, Reiner A Veitia.   

Abstract

Human proteins containing polyalanine tracts tend to have runs of other amino acids and their open reading frames (ORFs) display a biased codon usage. Their alanine, glycine, proline, and histidine content strongly correlates with the GC content of the third codon base, suggesting that the compositional specificity of these proteins is dictated to a great extent by the evolution of their ORFs.

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Year:  2003        PMID: 14668408      PMCID: PMC1462819     

Source DB:  PubMed          Journal:  Genetics        ISSN: 0016-6731            Impact factor:   4.562


  12 in total

1.  The correlation of protein hydropathy with the base composition of coding sequences.

Authors:  G D'Onofrio; K Jabbari; H Musto; G Bernardi
Journal:  Gene       Date:  1999-09-30       Impact factor: 3.688

2.  Evolution and expression of FOXL2.

Authors:  J Cocquet; E Pailhoux; F Jaubert; N Servel; X Xia; M Pannetier; E De Baere; L Messiaen; C Cotinot; M Fellous; R A Veitia
Journal:  J Med Genet       Date:  2002-12       Impact factor: 6.318

Review 3.  The evolution of isochores.

Authors:  A Eyre-Walker; L D Hurst
Journal:  Nat Rev Genet       Date:  2001-07       Impact factor: 53.242

4.  Novel mutation processes in the evolution of a haploid minisatellite, MSY1: array homogenization without homogenization.

Authors:  N Bouzekri; P G Taylor; M F Hammer; M A Jobling
Journal:  Hum Mol Genet       Date:  1998-04       Impact factor: 6.150

5.  Statistical features of human exons and their flanking regions.

Authors:  M Q Zhang
Journal:  Hum Mol Genet       Date:  1998-05       Impact factor: 6.150

6.  Amino acid runs in eukaryotic proteomes and disease associations.

Authors:  Samuel Karlin; Luciano Brocchieri; Aviv Bergman; Jan Mrazek; Andrew J Gentles
Journal:  Proc Natl Acad Sci U S A       Date:  2002-01-08       Impact factor: 11.205

7.  Class III POU genes: generation of homopolymeric amino acid repeats under GC pressure in mammals.

Authors:  K Sumiyama; K Washio-Watanabe; N Saitou; T Hayakawa; S Ueda
Journal:  J Mol Evol       Date:  1996-09       Impact factor: 2.395

Review 8.  Molecular chaperones as modulators of polyglutamine protein aggregation and toxicity.

Authors:  Hideki Sakahira; Peter Breuer; Manajit K Hayer-Hartl; F Ulrich Hartl
Journal:  Proc Natl Acad Sci U S A       Date:  2002-08-20       Impact factor: 11.205

9.  FOXL2 and BPES: mutational hotspots, phenotypic variability, and revision of the genotype-phenotype correlation.

Authors:  Elfride De Baere; Diane Beysen; Christine Oley; Birgit Lorenz; Julie Cocquet; Paul De Sutter; Koen Devriendt; Michael Dixon; Marc Fellous; Jean-Pierre Fryns; Arturo Garza; Christoffer Jonsrud; Pasi A Koivisto; Amanda Krause; Bart P Leroy; Françoise Meire; Astrid Plomp; Lionel Van Maldergem; Anne De Paepe; Reiner Veitia; Ludwine Messiaen
Journal:  Am J Hum Genet       Date:  2003-01-14       Impact factor: 11.025

Review 10.  Dinucleotide relative abundance extremes: a genomic signature.

Authors:  S Karlin; C Burge
Journal:  Trends Genet       Date:  1995-07       Impact factor: 11.639

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  9 in total

1.  A genomic basis for the evolution of vertebrate transcription factors containing amino Acid runs.

Authors:  Sandrine Caburet; Daniel Vaiman; Reiner A Veitia
Journal:  Genetics       Date:  2004-08       Impact factor: 4.562

2.  RCPdb: An evolutionary classification and codon usage database for repeat-containing proteins.

Authors:  Noel G Faux; Gavin A Huttley; Khalid Mahmood; Geoffrey I Webb; Maria Garcia de la Banda; James C Whisstock
Journal:  Genome Res       Date:  2007-06-13       Impact factor: 9.043

3.  Lineage-specific protein repeat expansions and contractions reveal malleable regions of immune genes.

Authors:  Lokdeep Teekas; Sandhya Sharma; Nagarjun Vijay
Journal:  Genes Immun       Date:  2022-10-06       Impact factor: 4.248

4.  Interactions between homopolymeric amino acids (HPAAs).

Authors:  Yoko Oma; Yoshihiro Kino; Kazuya Toriumi; Noboru Sasagawa; Shoichi Ishiura
Journal:  Protein Sci       Date:  2007-08-31       Impact factor: 6.725

5.  Genome-wide analysis of histidine repeats reveals their role in the localization of human proteins to the nuclear speckles compartment.

Authors:  Eulàlia Salichs; Alice Ledda; Loris Mularoni; M Mar Albà; Susana de la Luna
Journal:  PLoS Genet       Date:  2009-03-06       Impact factor: 5.917

6.  ProRepeat: an integrated repository for studying amino acid tandem repeats in proteins.

Authors:  Hong Luo; Ke Lin; Audrey David; Harm Nijveen; Jack A M Leunissen
Journal:  Nucleic Acids Res       Date:  2011-11-18       Impact factor: 16.971

7.  Tandem amino acid repeats in the green anole (Anolis carolinensis) and other squamates may have a role in increasing genetic variability.

Authors:  Riga Wu; Qingfeng Liu; Peng Zhang; Dan Liang
Journal:  BMC Genomics       Date:  2016-02-12       Impact factor: 3.969

8.  Association of polyalanine and polyglutamine coiled coils mediates expansion disease-related protein aggregation and dysfunction.

Authors:  Ilaria Pelassa; Davide Corà; Federico Cesano; Francisco J Monje; Pier Giorgio Montarolo; Ferdinando Fiumara
Journal:  Hum Mol Genet       Date:  2014-02-04       Impact factor: 6.150

9.  Homepeptide repeats: implications for protein structure, function and evolution.

Authors:  Muthukumarasamy Uthayakumar; Bowdadu Benazir; Sanjeev Patra; Marthandan Kirti Vaishnavi; Manickam Gurusaran; Kanagarajan Sureka; Jeyaraman Jeyakanthan; Kanagaraj Sekar
Journal:  Genomics Proteomics Bioinformatics       Date:  2012-08-04       Impact factor: 7.691

  9 in total

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