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Volumn 6, Issue 10, 1997, Pages 2043-2058

Sequence analysis of the AAA protein family

Author keywords

AAA family; ATPase; Evolution; Secondary structure prediction; Walker family

Indexed keywords

ADENOSINE TRIPHOSPHATASE;

EID: 0030867609     PISSN: 09618368     EISSN: None     Source Type: Journal    
DOI: 10.1002/pro.5560061001     Document Type: Review
Times cited : (212)

References (58)
  • 1
    • 0028998836 scopus 로고
    • High-resolution structures of adenylate kinase from yeast ligated with inhibitor Ap5A, showing the pathway of phosphoryl transfer
    • Abele U, Schulz GE. 1995. High-resolution structures of adenylate kinase from yeast ligated with inhibitor Ap5A, showing the pathway of phosphoryl transfer. Protein Sci 4:1262-1271.
    • (1995) Protein Sci , vol.4 , pp. 1262-1271
    • Abele, U.1    Schulz, G.E.2
  • 4
    • 0021118489 scopus 로고
    • Evolution and the tertiary structure of proteins
    • Bajaj M, Blundell T. 1984. Evolution and the tertiary structure of proteins. Annu Rev Biophys Bioeng 13:451-492.
    • (1984) Annu Rev Biophys Bioeng , vol.13 , pp. 451-492
    • Bajaj, M.1    Blundell, T.2
  • 5
    • 0028361218 scopus 로고
    • Archaea and eukaryotes grow closer
    • Barinaga M. 1994. Archaea and eukaryotes grow closer. Science 264:1251.
    • (1994) Science , vol.264 , pp. 1251
    • Barinaga, M.1
  • 6
    • 0023067286 scopus 로고
    • The origin of eukaryote and archaebacterial cells
    • Cavalier-Smith T. 1987. The origin of eukaryote and archaebacterial cells. Ann NY Acad Sci USA 503:17-54.
    • (1987) Ann NY Acad Sci USA , vol.503 , pp. 17-54
    • Cavalier-Smith, T.1
  • 7
    • 0029870267 scopus 로고    scopus 로고
    • A component of the 26S proteasome binds on orphan member of the nuclear hormone receptor superfamily
    • Choi HS, Seol W, Moore DD. 1996. A component of the 26S proteasome binds on orphan member of the nuclear hormone receptor superfamily. J Steroid Biochem Mol Biol 56:23-30.
    • (1996) J Steroid Biochem Mol Biol , vol.56 , pp. 23-30
    • Choi, H.S.1    Seol, W.2    Moore, D.D.3
  • 8
    • 0015987426 scopus 로고
    • Prediction of protein conformation
    • Chou PY, Fasman GD. 1974. Prediction of protein conformation. Biochemistry 13:22-245.
    • (1974) Biochemistry , vol.13 , pp. 22-245
    • Chou, P.Y.1    Fasman, G.D.2
  • 9
    • 0029328549 scopus 로고
    • A 200-amino acid ATPase module in search of a basic function
    • Confalonieri F, Duguet M. 1995. A 200-amino acid ATPase module in search of a basic function. Bioessays 17:639-650.
    • (1995) Bioessays , vol.17 , pp. 639-650
    • Confalonieri, F.1    Duguet, M.2
  • 10
    • 0028140593 scopus 로고
    • SAV, an archaebacterial gene with extensive homolgy to a family of highly conserved eukaryotic ATPases
    • Confalonieri F, Marsault J, Duguet M. 1994. SAV, an archaebacterial gene with extensive homolgy to a family of highly conserved eukaryotic ATPases. J Mol Biol 235:396-401.
    • (1994) J Mol Biol , vol.235 , pp. 396-401
    • Confalonieri, F.1    Marsault, J.2    Duguet, M.3
  • 13
    • 0026486168 scopus 로고
    • Subunit 4 of the 26S protease is a member of a novel eukaryotic ATPase family
    • Dubiel W, Ferrell K, Pratt G, Rechsteiner MC. 1992. Subunit 4 of the 26S protease is a member of a novel eukaryotic ATPase family. J Biol Chem 267:22699-22702.
    • (1992) J Biol Chem , vol.267 , pp. 22699-22702
    • Dubiel, W.1    Ferrell, K.2    Pratt, G.3    Rechsteiner, M.C.4
  • 14
    • 0024094923 scopus 로고
    • Characterization of a component of the yeast secretion machinery: Identification of the SEC18 gene product
    • Eakle KA, Bernstein M, Emr SD. 1988. Characterization of a component of the yeast secretion machinery: Identification of the SEC18 gene product. Mol Cell Biol 8:4098-4109.
    • (1988) Mol Cell Biol , vol.8 , pp. 4098-4109
    • Eakle, K.A.1    Bernstein, M.2    Emr, S.D.3
  • 15
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: An approach using the bootstrap
    • Felsenstein J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39:783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 16
    • 0028881024 scopus 로고
    • The ATPase activity of purified Cdc48p from Saccharomyces cerevisiae shows complex dependence on ATP-, ADP-, and NADH-concentrations and is completely inhibited by NEM
    • Fröhlich KU, Fries HW, Peters JM, Mecke D. 1995. The ATPase activity of purified Cdc48p from Saccharomyces cerevisiae shows complex dependence on ATP-, ADP-, and NADH-concentrations and is completely inhibited by NEM. Biochim Biophys Acta 1253:25-32.
    • (1995) Biochim Biophys Acta , vol.1253 , pp. 25-32
    • Fröhlich, K.U.1    Fries, H.W.2    Peters, J.M.3    Mecke, D.4
  • 17
    • 0017873321 scopus 로고
    • Identification of predictive sequence motifs limited by protein structure data base size
    • Garnier J, Osgusthorpe DJ, Robson B. 1978. Identification of predictive sequence motifs limited by protein structure data base size. J Mol Biol 120:97-120.
    • (1978) J Mol Biol , vol.120 , pp. 97-120
    • Garnier, J.1    Osgusthorpe, D.J.2    Robson, B.3
  • 18
    • 0019463779 scopus 로고
    • Globin evolution was apparently very rapid in early vertebrates: A reasonable case against the rate-constancy hypothesis
    • Goodman M. 1981. Globin evolution was apparently very rapid in early vertebrates: A reasonable case against the rate-constancy hypothesis. J Mol Evol 17:114-120.
    • (1981) J Mol Evol , vol.17 , pp. 114-120
    • Goodman, M.1
  • 19
    • 0026671777 scopus 로고
    • Isolation of a yeast gene encoding a protein homologous to the human Tat-binding protein TBP-1
    • Goyer C, Lee HS, Malo D, Sonenberg N. 1992. Isolation of a yeast gene encoding a protein homologous to the human Tat-binding protein TBP-1. DNA Cell Biol 11:579-585.
    • (1992) DNA Cell Biol , vol.11 , pp. 579-585
    • Goyer, C.1    Lee, H.S.2    Malo, D.3    Sonenberg, N.4
  • 20
    • 0026325708 scopus 로고
    • Playing with blocks: Some pitfalls of forcing multiple alignments
    • Henikoff S. 1991. Playing with blocks: Some pitfalls of forcing multiple alignments. New Biol 3:1148-1154.
    • (1991) New Biol , vol.3 , pp. 1148-1154
    • Henikoff, S.1
  • 21
    • 0026410103 scopus 로고
    • Automated assembly of protein blocks for database searching
    • Henikoff S, Henikoff JG. 1991. Automated assembly of protein blocks for database searching. Nucleic Acids Res 19:6565-6572.
    • (1991) Nucleic Acids Res , vol.19 , pp. 6565-6572
    • Henikoff, S.1    Henikoff, J.G.2
  • 22
    • 0026605537 scopus 로고
    • CLUSTAL V: Improved software for multiple sequence alignment
    • Higgins DJ, Bleasby AJ, Fuchs R. 1992. CLUSTAL V: Improved software for multiple sequence alignment. Comput Appl Biosci 8:189-191.
    • (1992) Comput Appl Biosci , vol.8 , pp. 189-191
    • Higgins, D.J.1    Bleasby, A.J.2    Fuchs, R.3
  • 23
    • 0024358140 scopus 로고
    • Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes
    • Iwabe N, Kuma KI, Hasegawa M, Osawa S, Miyata T. 1989. Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes. Proc Natl Acad Sci USA 86:9355-9359.
    • (1989) Proc Natl Acad Sci USA , vol.86 , pp. 9355-9359
    • Iwabe, N.1    Kuma, K.I.2    Hasegawa, M.3    Osawa, S.4    Miyata, T.5
  • 24
    • 0023461218 scopus 로고
    • Molecular evolutionary clock and the neutral theory
    • Kimura M. 1987. Molecular evolutionary clock and the neutral theory. J Mol Evol 26:24-33.
    • (1987) J Mol Evol , vol.26 , pp. 24-33
    • Kimura, M.1
  • 26
    • 0026686760 scopus 로고
    • AFG1, a new member of the SEC18-NSF, PAS1, CDC48-VCP, TBP-1 family of ATPases
    • Lee YJ, Wickner RB. 1992. AFG1, a new member of the SEC18-NSF, PAS1, CDC48-VCP, TBP-1 family of ATPases. Yeast 8:787-790.
    • (1992) Yeast , vol.8 , pp. 787-790
    • Lee, Y.J.1    Wickner, R.B.2
  • 27
    • 0028500688 scopus 로고
    • Molecular evolution: Codes, clocks, genes and genomes
    • MacIntyre RJ. 1994. Molecular evolution: Codes, clocks, genes and genomes. Bioessays 16:699-703.
    • (1994) Bioessays , vol.16 , pp. 699-703
    • MacIntyre, R.J.1
  • 29
    • 0027408305 scopus 로고
    • Sequence similarities between cell regulation factors, heat shock proteins and RNA helicases
    • Mian I. 1993. Sequence similarities between cell regulation factors, heat shock proteins and RNA helicases. Trends Biochem Sci 18:125-127.
    • (1993) Trends Biochem Sci , vol.18 , pp. 125-127
    • Mian, I.1
  • 30
    • 0028149757 scopus 로고
    • The ATPase activity of N-ethylmaleimide-sensitive fusion protein (NSF) is regulated by soluble NSF attachment proteins
    • Morgan A, Dimaline R, Burgoyne RD. 1994. The ATPase activity of N-ethylmaleimide-sensitive fusion protein (NSF) is regulated by soluble NSF attachment proteins. J Biol Chem 269:29347-29350.
    • (1994) J Biol Chem , vol.269 , pp. 29347-29350
    • Morgan, A.1    Dimaline, R.2    Burgoyne, R.D.3
  • 31
    • 0026563170 scopus 로고
    • Evolution of organellar proton-ATPases
    • Nelson N. 1992. Evolution of organellar proton-ATPases. Biochim Biophys Acta 1100:109-124.
    • (1992) Biochim Biophys Acta , vol.1100 , pp. 109-124
    • Nelson, N.1
  • 32
    • 0026702012 scopus 로고
    • BCS1, a novel gene required for the expression of functional Rieske iron-sulfur protein in Saccharomyces cerevisiae
    • Nobrega FG, Nobrega MP, Tzagoloff A. 1992. BCS1, a novel gene required for the expression of functional Rieske iron-sulfur protein in Saccharomyces cerevisiae. EMBO J 11:3821-3829.
    • (1992) EMBO J , vol.11 , pp. 3821-3829
    • Nobrega, F.G.1    Nobrega, M.P.2    Tzagoloff, A.3
  • 33
    • 0023822631 scopus 로고
    • Relationships between gene trees and species trees
    • Pamilo P, Nei M. 1988. Relationships between gene trees and species trees. Mol Biol Evol 5:568-583.
    • (1988) Mol Biol Evol , vol.5 , pp. 568-583
    • Pamilo, P.1    Nei, M.2
  • 34
    • 0025272240 scopus 로고
    • Rapid and sensitive sequence comparison with FASTP and FASTA
    • Pearson WR. 1990. Rapid and sensitive sequence comparison with FASTP and FASTA. Methods Enzymol 183:63-98.
    • (1990) Methods Enzymol , vol.183 , pp. 63-98
    • Pearson, W.R.1
  • 37
    • 0024078021 scopus 로고
    • Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins
    • Rooman MJ, Wodak SJ. 1988. Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins. Nature 335:45-49.
    • (1988) Nature , vol.335 , pp. 45-49
    • Rooman, M.J.1    Wodak, S.J.2
  • 38
    • 0027169638 scopus 로고
    • Improved prediction of protein secondary structure by use of sequence profiles and neural networks
    • Rost B, Sander C. 1993a. Improved prediction of protein secondary structure by use of sequence profiles and neural networks. Proc Natl Acad Sci USA 90:7558-7562.
    • (1993) Proc Natl Acad Sci USA , vol.90 , pp. 7558-7562
    • Rost, B.1    Sander, C.2
  • 39
    • 0027291015 scopus 로고
    • Prediction of protein structure at better than 70% accuracy
    • Rost B, Sander C. 1993b. Prediction of protein structure at better than 70% accuracy. J Mol Biol 232:584-599.
    • (1993) J Mol Biol , vol.232 , pp. 584-599
    • Rost, B.1    Sander, C.2
  • 40
    • 0028158628 scopus 로고
    • An automatic mail server for protein secondary structure prediction
    • Rost B, Sander C, Schneider R. 1994. An automatic mail server for protein secondary structure prediction. Comput Appl Biosci 10:53-60.
    • (1994) Comput Appl Biosci , vol.10 , pp. 53-60
    • Rost, B.1    Sander, C.2    Schneider, R.3
  • 41
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou N, Nei M, 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425.
    • (1987) Mol Biol Evol , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 42
    • 0025048136 scopus 로고
    • The P-loop a common motif in ATP- and GTP-binding proteins
    • Saraste M, Sibbald PR, Wittinghofer A. 1990. The P-loop a common motif in ATP-and GTP-binding proteins. Trends Biochem Sci 15:430-434.
    • (1990) Trends Biochem Sci , vol.15 , pp. 430-434
    • Saraste, M.1    Sibbald, P.R.2    Wittinghofer, A.3
  • 43
    • 0028071874 scopus 로고
    • Identification of a set of yeast genes coding for a novel family of putative ATPases with high similarity to constituents of the 26S protease complex
    • Schnall R, Mannhaupt G, Stucka R, Tauer R, Ehnle S, Schwarzlose C, Vetter I, Feldmann H. 1994. Identification of a set of yeast genes coding for a novel family of putative ATPases with high similarity to constituents of the 26S protease complex. Yeast 10:1141-1155.
    • (1994) Yeast , vol.10 , pp. 1141-1155
    • Schnall, R.1    Mannhaupt, G.2    Stucka, R.3    Tauer, R.4    Ehnle, S.5    Schwarzlose, C.6    Vetter, I.7    Feldmann, H.8
  • 44
    • 0025008168 scopus 로고
    • Sequence logos: A new way to display consensus sequences
    • Schneider TD, Stephens RM. 1990. Sequence logos: A new way to display consensus sequences. Nucleic Acids Res 15:6097-6100.
    • (1990) Nucleic Acids Res , vol.15 , pp. 6097-6100
    • Schneider, T.D.1    Stephens, R.M.2
  • 45
    • 0026100921 scopus 로고
    • A workbench for multiple alignment construction and analysis
    • Schuler GD, Altschul SF, Lipman DJ. 1991. A workbench for multiple alignment construction and analysis. Proteins 9:180-190.
    • (1991) Proteins , vol.9 , pp. 180-190
    • Schuler, G.D.1    Altschul, S.F.2    Lipman, D.J.3
  • 46
    • 12944300317 scopus 로고
    • Binding of nucleotides by proteins
    • Schulz GE. 1992. Binding of nucleotides by proteins. Curr Opin Struct Biol 2:61-67.
    • (1992) Curr Opin Struct Biol , vol.2 , pp. 61-67
    • Schulz, G.E.1
  • 47
    • 0029914905 scopus 로고    scopus 로고
    • Active site comparisons highlight structural similarities between myosin and other p-loop proteins
    • Smith CA, Rayment I. 1996. Active site comparisons highlight structural similarities between myosin and other p-loop proteins. Biophys J 70:1590-1602
    • (1996) Biophys J , vol.70 , pp. 1590-1602
    • Smith, C.A.1    Rayment, I.2
  • 48
    • 0030062797 scopus 로고    scopus 로고
    • A member of the phylogenetically conserved CAD family of transcriptional regulators is dramatically up-regulated during the programmed cell death of skeletal muscle in the tobacco hawkmoth Manduca Sexta
    • Sun DH, Sathyanarayana UG, Johnston SA, Schwartz LM. 1996. A member of the phylogenetically conserved CAD family of transcriptional regulators is dramatically up-regulated during the programmed cell death of skeletal muscle in the tobacco hawkmoth Manduca Sexta. Dev Biol 173:499-509.
    • (1996) Dev Biol , vol.173 , pp. 499-509
    • Sun, D.H.1    Sathyanarayana, U.G.2    Johnston, S.A.3    Schwartz, L.M.4
  • 49
    • 0026681291 scopus 로고
    • Alterations in a yeast protein resembling HIV Tat-binding protein relieve requirement for an acidic activation domain in GAL4
    • Swaffield JC, Bromberg JF, Johnston SA. 1992. Alterations in a yeast protein resembling HIV Tat-binding protein relieve requirement for an acidic activation domain in GAL4. Nature 357:698-700.
    • (1992) Nature , vol.357 , pp. 698-700
    • Swaffield, J.C.1    Bromberg, J.F.2    Johnston, S.A.3
  • 50
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ. 1994. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 51
    • 0029046744 scopus 로고
    • An assessment of amino acid exchange matrices in aligning protein sequences: The twilight zone revisited
    • Vogt G, Etzold T, Argos P. 1995. An assessment of amino acid exchange matrices in aligning protein sequences: The twilight zone revisited. J Mol Biol 249:816-831.
    • (1995) J Mol Biol , vol.249 , pp. 816-831
    • Vogt, G.1    Etzold, T.2    Argos, P.3
  • 52
    • 0001607723 scopus 로고
    • Distantly related sequences in the alpha- and β-subunits of ATP synthase, myosin, kinases and other ATP-requiring enzymes and a common nucleotide binding fold
    • Walker JE, Saraste M, Runswick MJ, Gay NJ. 1982. Distantly related sequences in the alpha-and β-subunits of ATP synthase, myosin, kinases and other ATP-requiring enzymes and a common nucleotide binding fold. EMBO J 1:945-951.
    • (1982) EMBO J , vol.1 , pp. 945-951
    • Walker, J.E.1    Saraste, M.2    Runswick, M.J.3    Gay, N.J.4
  • 53
    • 0028846974 scopus 로고
    • Binary patterning of polar and nonpolar amino acids in the sequences and structures of native proteins
    • West MW, Hecht MH. 1995. Binary patterning of polar and nonpolar amino acids in the sequences and structures of native proteins. Protein Sci 4:2032-2039.
    • (1995) Protein Sci , vol.4 , pp. 2032-2039
    • West, M.W.1    Hecht, M.H.2
  • 54
    • 0028132782 scopus 로고
    • N-ethylmaleimide-sensitive fusion protein: A trimeric ATPase whose hydrolysis of ATP is required for membrane fusion
    • Whiteheart SW. 1994. N-ethylmaleimide-sensitive fusion protein: A trimeric ATPase whose hydrolysis of ATP is required for membrane fusion. J Cell Biol 126:945-954.
    • (1994) J Cell Biol , vol.126 , pp. 945-954
    • Whiteheart, S.W.1
  • 57
    • 0028008360 scopus 로고
    • Similarity between putative ATP-binding sites in land plant plastid ORF2280 proteins and the FtsH/CDC48 family of ATPases
    • Wolle KH. 1994. Similarity between putative ATP-binding sites in land plant plastid ORF2280 proteins and the FtsH/CDC48 family of ATPases. Curr Genet 25:379-383.
    • (1994) Curr Genet , vol.25 , pp. 379-383
    • Wolle, K.H.1
  • 58
    • 0001673027 scopus 로고
    • Jackknife, bootstrap and other resampling plans in regression analysis
    • Wu CFJ. 1986. Jackknife, bootstrap and other resampling plans in regression analysis. Ann Stat 14:1261-1295.
    • (1986) Ann Stat , vol.14 , pp. 1261-1295
    • Wu, C.F.J.1


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