메뉴 건너뛰기




Volumn 68, Issue 5, 2009, Pages 490-497

Amino acid metabolic origin as an evolutionary influence on protein sequence in yeast

Author keywords

Amino acid sequence; Metabolism; Optimization; Oxidation; Protein function; Reduction; Yeast metabolic cycle

Indexed keywords

AMINO ACID; PROTEIN PRECURSOR;

EID: 67349280647     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-009-9218-5     Document Type: Article
Times cited : (11)

References (32)
  • 1
    • 33846065036 scopus 로고    scopus 로고
    • Oxygen content of transmembrane proteins over macroevolutionary time scales
    • DOI 10.1038/nature05450, PII NATURE05450
    • C Acquisti J Kleffe S Collins 2007 Oxygen content of transmembrane proteins over macroevolutionary time scales Nature 445 47 52 (Pubitemid 46067297)
    • (2007) Nature , vol.445 , Issue.7123 , pp. 47-52
    • Acquisti, C.1    Kleffe, J.2    Collins, S.3
  • 2
    • 0041817645 scopus 로고    scopus 로고
    • Translational selection and yeast proteome evolution
    • H Akashi 2003 Translational selection and yeast proteome evolution Genetics 164 1291 1303 (Pubitemid 37102197)
    • (2003) Genetics , vol.164 , Issue.4 , pp. 1291-1303
    • Akashi, H.1
  • 4
    • 18444379063 scopus 로고    scopus 로고
    • Evidence of selection for low cognate amino acid bias in amino acid biosynthetic enzymes
    • DOI 10.1111/j.1365-2958.2005.04566.x
    • R Alves MA Savageau 2005 Evidence of selection for low cognate amino acid bias in amino acid biosynthetic enzymes Mol Microbiol 56 1017 1034 (Pubitemid 40646772)
    • (2005) Molecular Microbiology , vol.56 , Issue.4 , pp. 1017-1034
    • Alves, R.1    Savageau, M.A.2
  • 6
    • 13444283846 scopus 로고    scopus 로고
    • Global protein function annotation through mining genome-scale data in yeast Saccharomyces cerevisiae
    • DOI 10.1093/nar/gkh978
    • Y Chen D Xu 2004 Global protein function annotation through mining genome-scale data in yeast Saccharomyces cerevisiae Nucleic Acids Res 32 6414 6424 (Pubitemid 40202100)
    • (2004) Nucleic Acids Research , vol.32 , Issue.21 , pp. 6414-6424
    • Chen, Y.1    Xu, D.2
  • 7
    • 0032087026 scopus 로고    scopus 로고
    • Selection costs of amino acid substitutions in ColE1 and ColIa gene clusters harbored by Escherichia coli
    • CL Craig RS Weber 1998 Selection costs of amino acid substitutions in ColE1 and ColIa gene clusters harbored by Escherichia coli Mol Biol Evol 15 774 776
    • (1998) Mol Biol Evol , vol.15 , pp. 774-776
    • Craig, C.L.1    Weber, R.S.2
  • 9
    • 0014211361 scopus 로고
    • Construction of phylogenetic trees
    • WM Fitch E Margoliash 1967 Construction of phylogenetic trees Science 155 279 284
    • (1967) Science , vol.155 , pp. 279-284
    • Fitch, W.M.1    Margoliash, E.2
  • 10
    • 0013770047 scopus 로고
    • Oscillations of glycolytic intermediates in yeast cells
    • A Ghosh B Chance 1964 Oscillations of glycolytic intermediates in yeast cells Biochem Biophys Res Commun 16 174 181
    • (1964) Biochem Biophys Res Commun , vol.16 , pp. 174-181
    • Ghosh, A.1    Chance, B.2
  • 11
    • 0037457491 scopus 로고    scopus 로고
    • Free intracellular amino acid pools during autonomous oscillations in saccharomyces cerevisiae
    • DOI 10.1002/bit.10553
    • MA Hans E Heinzle C Wittmann 2003 Free intracellular amino acid pools during autonomous oscillations in Saccharomyces cerevisiae Biotechnol Bioeng 82 143 151 (Pubitemid 36362915)
    • (2003) Biotechnology and Bioengineering , vol.82 , Issue.2 , pp. 143-151
    • Hans, M.A.1    Heinzle, E.2    Wittmann, C.3
  • 12
    • 19944382175 scopus 로고    scopus 로고
    • Comparison of the yeast proteome to other fungal genomes to find core fungal genes
    • DOI 10.1007/s00239-004-0218-1
    • T Hsiang DL Baillie 2005 Comparison of the yeast proteome to other fungal genomes to find core fungal genes J Mol Evol 60 475 483 (Pubitemid 40754788)
    • (2005) Journal of Molecular Evolution , vol.60 , Issue.4 , pp. 475-483
    • Hsiang, T.1    Baillie, D.L.2
  • 13
    • 0028088517 scopus 로고
    • Hydrophobicity, expressivity and aromaticity are the major trends of amino-acid usage in 999 Escherichia coli chromosome-encoded genes
    • JR Lobry C Gautier 1994 Hydrophobicity, expressivity and aromaticity are the major trends of amino-acid usage in 999 Escherichia coli chromosome-encoded genes Nucleic Acids Res 22 3174 3180 (Pubitemid 24260653)
    • (1994) Nucleic Acids Research , vol.22 , Issue.15 , pp. 3174-3180
    • Lobry, J.R.1    Gautier, C.2
  • 14
    • 0024975803 scopus 로고
    • Adaptive eradication of methionine and cysteine from cyanobacterial light-harvesting proteins
    • D Mazel P Marliere 1989 Adaptive eradication of methionine and cysteine from cyanobacterial light-harvesting proteins Nature 341 245 248
    • (1989) Nature , vol.341 , pp. 245-248
    • Mazel, D.1    Marliere, P.2
  • 15
    • 24644490119 scopus 로고    scopus 로고
    • Comparative analysis of amino acid distributions in integral membrane proteins from 107 genomes
    • DOI 10.1002/prot.20583
    • J Nilsson B Persson G von Heijne 2005 Comparative analysis of amino acid distributions in integral membrane proteins from 107 genomes Proteins 60 606 616 (Pubitemid 41266419)
    • (2005) Proteins: Structure, Function and Genetics , vol.60 , Issue.4 , pp. 606-616
    • Nilsson, J.1    Persson, B.2    Von Heijne, G.3
  • 18
    • 34548357121 scopus 로고    scopus 로고
    • Assessing the determinants of evolutionary rates in the presence of noise
    • DOI 10.1093/molbev/msm044
    • JB Plotkin HB Fraser 2007 Assessing the determinants of evolutionary rates in the presence of noise Mol Biol Evol 24 1113 1121 (Pubitemid 47343649)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.5 , pp. 1113-1121
    • Plotkin, J.B.1    Fraser, H.B.2
  • 19
    • 0028948605 scopus 로고
    • Correlation between codon usage, regional genomic nucleotide composition, and amino acid composition in the cytochrome P-450 gene superfamily
    • TD Porter 1995 Correlation between codon usage, regional genomic nucleotide composition, and amino acid composition in the cytochrome P-450 gene superfamily Biochim Biophys Acta 1261 394 400
    • (1995) Biochim Biophys Acta , vol.1261 , pp. 394-400
    • Porter, T.D.1
  • 20
    • 0023277621 scopus 로고
    • Genetic characterization of a highly efficient alternate pathway of serine biosynthesis in Escherichia coli
    • PD Ravnikar RL Somerville 1987 Genetic characterization of a highly efficient alternate pathway of serine biosynthesis in Escherichia coli J Bacteriol 169 2611 2617 (Pubitemid 17104322)
    • (1987) Journal of Bacteriology , vol.169 , Issue.6 , pp. 2611-2617
    • Ravnikar, P.D.1    Somerville, R.L.2
  • 21
    • 0141783646 scopus 로고    scopus 로고
    • The rhythm of yeast
    • DOI 10.1016/S0168-6445(03)00065-2
    • P Richard 2003 The rhythm of yeast FEMS Microbiol Rev 27 547 557 (Pubitemid 37205169)
    • (2003) FEMS Microbiology Reviews , vol.27 , Issue.4 , pp. 547-557
    • Richard, P.1
  • 22
    • 0029761908 scopus 로고    scopus 로고
    • Fermentative arginine degradation in Halobacterium salinarium (formerly Halobacterium halobium): Genes, gene products,and transcripts of the arcRACB gene cluster
    • A Ruepp J Soppa 1996 Fermentative arginine degradation in Halobacterium salinarium (formerly Halobacterium halobium): genes, gene products, and transcripts of the arcRACB gene cluster J Bacteriol 178 4942 4947 (Pubitemid 26321296)
    • (1996) Journal of Bacteriology , vol.178 , Issue.16 , pp. 4942-4947
    • Ruepp, A.1    Soppa, J.2
  • 23
    • 0037308511 scopus 로고    scopus 로고
    • Cost-minimization of amino acid usage
    • DOI 10.1007/s00239-002-2388-z
    • H Seligmann 2003 Cost-minimization of amino acid usage J Mol Evol 56 151 161 (Pubitemid 36169683)
    • (2003) Journal of Molecular Evolution , vol.56 , Issue.2 , pp. 151-161
    • Seligmann, H.1
  • 24
    • 0033745103 scopus 로고    scopus 로고
    • Nucleotide bias causes a genomewise bias in the amino acid composition of proteins
    • GA Singer DA Hickey 2000 Nucleotide bias causes a genomewise bias in the amino acid composition of proteins Mol Biol Evol 17 1581 1588
    • (2000) Mol Biol Evol , vol.17 , pp. 1581-1588
    • Singer, G.A.1    Hickey, D.A.2
  • 26
    • 0032900532 scopus 로고    scopus 로고
    • Genome phylogeny based on gene content
    • DOI 10.1038/5052
    • B Snel P Bork MA Huynen 1999 Genome phylogeny based on gene content Nat Genet 21 108 110 (Pubitemid 29036294)
    • (1999) Nature Genetics , vol.21 , Issue.1 , pp. 108-110
    • Snel, B.1    Bork, P.2    Huynen, M.A.3
  • 27
    • 34248157233 scopus 로고    scopus 로고
    • Selection on synthesis cost affects interprotein amino acid usage in all three domains of life
    • DOI 10.1007/s00239-006-0206-8
    • J Swire 2007 Selection on synthesis cost affects interprotein amino acid usage in all three domains of life J Mol Evol 64 558 571 (Pubitemid 46717932)
    • (2007) Journal of Molecular Evolution , vol.64 , Issue.5 , pp. 558-571
    • Swire, J.1
  • 28
    • 33846536849 scopus 로고    scopus 로고
    • Evolution of proteomes: Fundamental signatures and global trends in amino acid compositions
    • F Tekaia E Yeramian 2006 Evolution of proteomes: Fundamental signatures and global trends in amino acid compositions BMC Genomics 7 307
    • (2006) BMC Genomics , vol.7 , pp. 307
    • Tekaia, F.1    Yeramian, E.2
  • 29
    • 0029021581 scopus 로고
    • Co-inertia analysis of amino-acid physico-chemical properties and protein composition with the ADE package
    • J Thiolouse JR Lobry 1995 Co-inertia analysis of amino-acid physico-chemical properties and protein composition with the ADE package Comput Appl Biosci 11 321 329
    • (1995) Comput Appl Biosci , vol.11 , pp. 321-329
    • Thiolouse, J.1    Lobry, J.R.2
  • 30
    • 27944487902 scopus 로고    scopus 로고
    • Logic of the yeast metabolic cycle: Temporal compartmentalization of cellular processes
    • BP Tu A Kudlicki M Rowicka SL McKnight 2005 Logic of the yeast metabolic cycle: Temporal compartmentalization of cellular processes Science 310 1152
    • (2005) Science , vol.310 , pp. 1152
    • Tu, B.P.1    Kudlicki, A.2    Rowicka, M.3    McKnight, S.L.4
  • 31
    • 16444380495 scopus 로고    scopus 로고
    • Dynamics of intracellular metabolites of glycolysis and TCA cycle during cell-cycle-related oscillation in Saccharomyces cerevisiae
    • DOI 10.1002/bit.20408
    • C Wittmann M Hans WA van Winden C Ras JJ Heijnen 2005 Dynamics of intracellular metabolites of glycolysis and TCA cycle during cell-cycle-related oscillation in Saccharomyces cerevisiae Biotechnol Bioeng 89 839 847 (Pubitemid 40476483)
    • (2005) Biotechnology and Bioengineering , vol.89 , Issue.7 , pp. 839-847
    • Wittmann, C.1    Hans, M.2    Van Winden, W.A.3    Ras, C.4    Heijnen, J.J.5
  • 32
    • 33745317477 scopus 로고    scopus 로고
    • Genome wide prediction of protein function via a generic knowledge discovery approach based on evidence integration
    • J Xiong S Rayner K Luo Y Li S Chen 2006 Genome wide prediction of protein function via a generic knowledge discovery approach based on evidence integration BMC Bioinformatics 7 268
    • (2006) BMC Bioinformatics , vol.7 , pp. 268
    • Xiong, J.1    Rayner, S.2    Luo, K.3    Li, Y.4    Chen, S.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.