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Volumn 29, Issue 3, 2004, Pages 261-273

When proteome meets genome: The alpha helix and the beta strand of proteins are eschewed by mRNA splice junctions and may define the minimal indivisible modules of protein architecture

Author keywords

Alpha helix; Beta strand; Exon shuffling; Secondary structure; Splice junction

Indexed keywords

MESSENGER RNA;

EID: 4644350214     PISSN: 02505991     EISSN: None     Source Type: Journal    
DOI: 10.1007/BF02702608     Document Type: Article
Times cited : (7)

References (53)
  • 1
    • 0029784483 scopus 로고    scopus 로고
    • Interactions between a minimal protein serine/threonine phosphatase and its phosphopeptide substrate sequence
    • Ansai T, Dupuy L C and Barik S 1996 Interactions between a minimal protein serine/threonine phosphatase and its phosphopeptide substrate sequence; J. Biol. Chem. 271 24401-24407
    • (1996) J. Biol. Chem. , vol.271 , pp. 24401-24407
    • Ansai, T.1    Dupuy, L.C.2    Barik, S.3
  • 2
    • 0031860103 scopus 로고    scopus 로고
    • The structure and mechanism of protein phosphatases: Insights into catalysis and regulation
    • Barford D, Das A K and Egloff M P 1998 The structure and mechanism of protein phosphatases: insights into catalysis and regulation; Annu. Rev. Biophys. Biomol. Struct. 27 133-164
    • (1998) Annu. Rev. Biophys. Biomol. Struct. , vol.27 , pp. 133-164
    • Barford, D.1    Das, A.K.2    Egloff, M.P.3
  • 3
    • 0027369888 scopus 로고
    • Expression and biochemical properties of a protein serine/threonine phosphatase encoded by bacteriophage lambda
    • Barik S 1993 Expression and biochemical properties of a protein serine/threonine phosphatase encoded by bacteriophage lambda; Proc. Natl. Acad. Sci. USA 90 10633-10637
    • (1993) Proc. Natl. Acad. Sci. USA , vol.90 , pp. 10633-10637
    • Barik, S.1
  • 4
    • 0028053053 scopus 로고
    • Conservation analysis and structure prediction of the protein serine/threonine phosphatases. Sequence similarity with diadenosine tetraphosphatase from Escherichia coli suggests homology to the protein phosphatases
    • Barton G J, Cohen P T and Barford D 1994 Conservation analysis and structure prediction of the protein serine/threonine phosphatases. Sequence similarity with diadenosine tetraphosphatase from Escherichia coli suggests homology to the protein phosphatases; Eur. J. Biochem. 220 225-227
    • (1994) Eur. J. Biochem. , vol.220 , pp. 225-227
    • Barton, G.J.1    Cohen, P.T.2    Barford, D.3
  • 5
    • 0017680534 scopus 로고
    • Spliced segments at the 5′ termini of adenovirus-2 late mRNA: A role for heterogeneous nuclear RNA in mammalian cells
    • Berget S M, Berk A J, Harrison T and Sharp P A 1978 Spliced segments at the 5′ termini of adenovirus-2 late mRNA: a role for heterogeneous nuclear RNA in mammalian cells; Cold Spring Harb. Symp. Quant. Biol. 42 523-529
    • (1978) Cold Spring Harb. Symp. Quant. Biol. , vol.42 , pp. 523-529
    • Berget, S.M.1    Berk, A.J.2    Harrison, T.3    Sharp, P.A.4
  • 6
    • 0001126390 scopus 로고
    • Do genes-in-pieces imply proteins-in-pieces?
    • Blake C C F 1978 Do genes-in-pieces imply proteins-in-pieces?; Nature (London) 273 267
    • (1978) Nature (London) , vol.273 , pp. 267
    • Blake, C.C.F.1
  • 7
    • 0018798273 scopus 로고
    • Exons encode protein functional units
    • Blake C C F 1979 Exons encode protein functional units; Nature (London) 277 598
    • (1979) Nature (London) , vol.277 , pp. 598
    • Blake, C.C.F.1
  • 8
    • 0021098175 scopus 로고
    • Exons - Present from the beginning?
    • Blake C C F 1983 Exons - present from the beginning?; Nature (London) 306 535-537
    • (1983) Nature (London) , vol.306 , pp. 535-537
    • Blake, C.C.F.1
  • 9
    • 0019363396 scopus 로고
    • Organization and expression of eucaryotic split genes coding for proteins
    • Breathnach R and Chambon P 1981 Organization and expression of eucaryotic split genes coding for proteins; Annu. Rev. Biochem. 50 349-383
    • (1981) Annu. Rev. Biochem. , vol.50 , pp. 349-383
    • Breathnach, R.1    Chambon, P.2
  • 10
    • 0022539779 scopus 로고
    • Complete nucleotide sequence of the fast skeletal troponin T gene. Alternatively spliced exons exhibit unusual interspecies divergence
    • Breitbart R E and Nadal-Ginard B 1986 Complete nucleotide sequence of the fast skeletal troponin T gene. Alternatively spliced exons exhibit unusual interspecies divergence; J. Mol. Biol. 188 313-324
    • (1986) J. Mol. Biol. , vol.188 , pp. 313-324
    • Breitbart, R.E.1    Nadal-Ginard, B.2
  • 12
    • 0642342561 scopus 로고    scopus 로고
    • ORFer - Retrieval of protein sequences and open reading frames from GenBank and storage into relational databases or text files
    • Bussow K, Hoffmann S and Sievert V 2002 ORFer - retrieval of protein sequences and open reading frames from GenBank and storage into relational databases or text files; BMC Bioinformatics 3 40
    • (2002) BMC Bioinformatics , vol.3 , pp. 40
    • Bussow, K.1    Hoffmann, S.2    Sievert, V.3
  • 13
    • 0033529415 scopus 로고    scopus 로고
    • Importance of the β12-β13 loop in protein phosphatase-1 catalytic subunit for inhibition by toxins and mammalian protein inhibitors
    • Connor J H, Kleeman T, Barik S, Honkanen R E and Shenolikar S 1999 Importance of the β12-β13 loop in protein phosphatase-1 catalytic subunit for inhibition by toxins and mammalian protein inhibitors; J. Biol. Chem. 274 22366-22372
    • (1999) J. Biol. Chem. , vol.274 , pp. 22366-22372
    • Connor, J.H.1    Kleeman, T.2    Barik, S.3    Honkanen, R.E.4    Shenolikar, S.5
  • 15
    • 0036140266 scopus 로고    scopus 로고
    • A unifold, mesofold, and superfold model of protein fold use
    • Coulson A F and Moult J 2002 A unifold, mesofold, and superfold model of protein fold use; Proteins 46 61-71
    • (2002) Proteins , vol.46 , pp. 61-71
    • Coulson, A.F.1    Moult, J.2
  • 16
    • 0030465532 scopus 로고    scopus 로고
    • Crystal structure of the protein serine/threonine phosphatase 2C at 2.0 A resolution
    • Das A K, Helps N R, Cohen P T and Barford D 1996 Crystal structure of the protein serine/threonine phosphatase 2C at 2.0 A resolution; EMBO J. 15 6798-6809
    • (1996) EMBO J. , vol.15 , pp. 6798-6809
    • Das, A.K.1    Helps, N.R.2    Cohen, P.T.3    Barford, D.4
  • 18
    • 0032574738 scopus 로고    scopus 로고
    • Toward a resolution of the introns early/late debate: Only phase zero introns are correlated with the structure of ancient proteins
    • de Souza S J, Long M, Klein R J, Roy S, Lin S and Gilbert W 1998 Toward a resolution of the introns early/late debate: only phase zero introns are correlated with the structure of ancient proteins; Proc. Natl. Acad. Sci. USA 95 5094-5099
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 5094-5099
    • De Souza, S.J.1    Long, M.2    Klein, R.J.3    Roy, S.4    Lin, S.5    Gilbert, W.6
  • 19
    • 0022622391 scopus 로고
    • Intron-dependent evolution of the nucleotide-binding domains within alcohol dehydrogenase and related enzymes
    • Duester G, Jornvall H and Hatfield G W 1986 Intron-dependent evolution of the nucleotide-binding domains within alcohol dehydrogenase and related enzymes; Nucleic Acids Res. 14 1931-1941
    • (1986) Nucleic Acids Res. , vol.14 , pp. 1931-1941
    • Duester, G.1    Jornvall, H.2    Hatfield, G.W.3
  • 20
    • 0029583122 scopus 로고
    • Crystal structure of the catalytic subunit of human protein phosphatase 1 and its complex with tungstate
    • Egloff M P, Cohen P T, Reinemer P and Barford D 1995 Crystal structure of the catalytic subunit of human protein phosphatase 1 and its complex with tungstate; J. Mol. Biol. 254 942-959
    • (1995) J. Mol. Biol. , vol.254 , pp. 942-959
    • Egloff, M.P.1    Cohen, P.T.2    Reinemer, P.3    Barford, D.4
  • 21
    • 0141608626 scopus 로고    scopus 로고
    • Messenger RNA reprogramming by spliceosome-mediated RNA trans-splicing
    • Garcia-Blanco M A 2003 Messenger RNA reprogramming by spliceosome-mediated RNA trans-splicing; J. Clin. Invest. 112 474-480
    • (2003) J. Clin. Invest. , vol.112 , pp. 474-480
    • Garcia-Blanco, M.A.1
  • 22
    • 0036499870 scopus 로고    scopus 로고
    • Automated assignment of SCOP and CATH protein structure classifications from FSSP scores
    • Getz G, Vendruscolo M, Sachs D and Domany E 2002 Automated assignment of SCOP and CATH protein structure classifications from FSSP scores; Proteins 46 405-415
    • (2002) Proteins , vol.46 , pp. 405-415
    • Getz, G.1    Vendruscolo, M.2    Sachs, D.3    Domany, E.4
  • 23
    • 0018263844 scopus 로고
    • Why genes in pieces?
    • Gilbert W 1978 Why genes in pieces?; Nature (London) 271 501
    • (1978) Nature (London) , vol.271 , pp. 501
    • Gilbert, W.1
  • 25
    • 0029094754 scopus 로고
    • Three-dimensional structure of the catalytic subunit of protein serine/threonine phosphatase-1
    • Goldberg J, Huang H B, Kwon Y G, Greengard P, Nairn A C and Kuriyan J 1995 Three-dimensional structure of the catalytic subunit of protein serine/threonine phosphatase-1; Nature (London) 376 745-753
    • (1995) Nature (London) , vol.376 , pp. 745-753
    • Goldberg, J.1    Huang, H.B.2    Kwon, Y.G.3    Greengard, P.4    Nairn, A.C.5    Kuriyan, J.6
  • 26
    • 0019860994 scopus 로고
    • Correlation between DNA exonic regions with protein structural units in hemoglobin
    • Go M 1981 Correlation between DNA exonic regions with protein structural units in hemoglobin; Nature (London) 291 90-92
    • (1981) Nature (London) , vol.291 , pp. 90-92
    • Go, M.1
  • 27
    • 0020742670 scopus 로고
    • Modular structural units, exons, and function in chicken lysozyme
    • Go M 1983 Modular structural units, exons, and function in chicken lysozyme; Proc. Natl. Acad. Sci. USA 80 1964-1968
    • (1983) Proc. Natl. Acad. Sci. USA , vol.80 , pp. 1964-1968
    • Go, M.1
  • 28
    • 0022234783 scopus 로고
    • Protein structures and split genes
    • Go M 1985 Protein structures and split genes; Adv. Biophys. 19 91-131
    • (1985) Adv. Biophys. , vol.19 , pp. 91-131
    • Go, M.1
  • 30
    • 0036087169 scopus 로고    scopus 로고
    • SUPERFAMILY: HMMs representing all proteins of known structure. SCOP sequence searches, alignments and genome assignments
    • Gough J and Chothia C 2002 SUPERFAMILY: HMMs representing all proteins of known structure. SCOP sequence searches, alignments and genome assignments; Nucleic Acids Res. 30 268-272
    • (2002) Nucleic Acids Res. , vol.30 , pp. 268-272
    • Gough, J.1    Chothia, C.2
  • 31
    • 0024395543 scopus 로고
    • Exon shuffling by recombination between self-splicing introns of bacteriophage T4
    • Hall D H, Liu Y and Shub D A 1989 Exon shuffling by recombination between self-splicing introns of bacteriophage T4; Nature (London) 340 575-576
    • (1989) Nature (London) , vol.340 , pp. 575-576
    • Hall, D.H.1    Liu, Y.2    Shub, D.A.3
  • 33
    • 12744262429 scopus 로고    scopus 로고
    • Characterisation and expression of a PP1 serine/threonine protein phosphatase (PfPP1) from the malaria parasite, Plasmodium falciparum: Demonstration of its essential role using RNA interference
    • Kumar R, Adams B, Oldenburg A, Musiyenko A and Barik S 2002 Characterisation and expression of a PP1 serine/threonine protein phosphatase (PfPP1) from the malaria parasite, Plasmodium falciparum: demonstration of its essential role using RNA interference; Malar. J. 1 5
    • (2002) Malar. J. , vol.1 , pp. 5
    • Kumar, R.1    Adams, B.2    Oldenburg, A.3    Musiyenko, A.4    Barik, S.5
  • 35
    • 0036088132 scopus 로고    scopus 로고
    • PASS2: A semi-automated database of protein alignments organized as structural superfamilies
    • Mallika V, Bhaduri A and Sowdhamini R 2002 PASS2: a semi-automated database of protein alignments organized as structural superfamilies; Nucleic Acids Res. 30 284-288
    • (2002) Nucleic Acids Res. , vol.30 , pp. 284-288
    • Mallika, V.1    Bhaduri, A.2    Sowdhamini, R.3
  • 36
    • 0037018839 scopus 로고    scopus 로고
    • Disruption of the alpha5 helix of transducin Impairs rhodopsin-catalyzed nucleotide exchange
    • Marin E P, Krishna A G and Sakmar T P 2002 Disruption of the alpha5 helix of transducin Impairs rhodopsin-catalyzed nucleotide exchange; Biochemistry 41 6988-6994
    • (2002) Biochemistry , vol.41 , pp. 6988-6994
    • Marin, E.P.1    Krishna, A.G.2    Sakmar, T.P.3
  • 37
    • 0036444017 scopus 로고    scopus 로고
    • Generalized Crick equations for modeling noncanonical coiled coils
    • Offer G, Hicks M R and Woolfson D N 2002 Generalized Crick equations for modeling noncanonical coiled coils; J. Struct. Biol. 137 41-53
    • (2002) J. Struct. Biol. , vol.137 , pp. 41-53
    • Offer, G.1    Hicks, M.R.2    Woolfson, D.N.3
  • 38
    • 0036173727 scopus 로고    scopus 로고
    • On residues in the disallowed region of the Ramachandran map
    • Pal D and Chakrabarti P 2002 On residues in the disallowed region of the Ramachandran map; Biopolymers 63 195-206
    • (2002) Biopolymers , vol.63 , pp. 195-206
    • Pal, D.1    Chakrabarti, P.2
  • 39
    • 0023405931 scopus 로고
    • Organization of the fibronectin gene provides evidence for exon shuffling during evolution
    • Patel R S, Odermatt E, Schwarzbauer J E and Hynes R O 1987 Organization of the fibronectin gene provides evidence for exon shuffling during evolution; EMBO J. 6 2565-2572
    • (1987) EMBO J. , vol.6 , pp. 2565-2572
    • Patel, R.S.1    Odermatt, E.2    Schwarzbauer, J.E.3    Hynes, R.O.4
  • 40
    • 0034751125 scopus 로고    scopus 로고
    • Alphavirus nucleocapsid protein contains a putative coiled coil alpha-helix important for core assembly
    • Perera R, Owen K E, Tellinghuisen T L, Gorbalenya A E and Kuhn R J 2001 Alphavirus nucleocapsid protein contains a putative coiled coil alpha-helix important for core assembly; J. Virol. 75 1-10
    • (2001) J. Virol. , vol.75 , pp. 1-10
    • Perera, R.1    Owen, K.E.2    Tellinghuisen, T.L.3    Gorbalenya, A.E.4    Kuhn, R.J.5
  • 42
    • 0025864311 scopus 로고
    • The leucine zipper symmetrically positions the adjacent basic regions for specific DNA binding
    • Pu W T and Struhl K 1991 The leucine zipper symmetrically positions the adjacent basic regions for specific DNA binding; Proc. Natl. Acad. Sci. USA 88 6901-6905
    • (1991) Proc. Natl. Acad. Sci. USA , vol.88 , pp. 6901-6905
    • Pu, W.T.1    Struhl, K.2
  • 47
    • 4644372301 scopus 로고    scopus 로고
    • Bethesda (MD): National Library of Medicine (US), National Center for Biotechnology Information; Oct. RefSeq is on Chapter 17
    • The NCBI handbook [Internet], Bethesda (MD): National Library of Medicine (US), National Center for Biotechnology Information; 2002 Oct. RefSeq is on Chapter 17. Available from http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db= Books
    • (2002) The NCBI Handbook [Internet]
  • 48
    • 0027413320 scopus 로고
    • A novel intron site in the triosephosphate isomerase gene from the mosquito Culex tarsalis
    • Tittiger C, Whyard S and Walker V K 1993 A novel intron site in the triosephosphate isomerase gene from the mosquito Culex tarsalis; Nature (London) 361 470-472
    • (1993) Nature (London) , vol.361 , pp. 470-472
    • Tittiger, C.1    Whyard, S.2    Walker, V.K.3
  • 49
    • 0034687659 scopus 로고    scopus 로고
    • Structure of the bacteriophage lambda Ser/Thr protein phosphatase with sulfate ion bound in two coordination modes
    • Voegtli W C, White D J, Reiter N J, Rusnak F, Rosenzweig A C 2000 Structure of the bacteriophage lambda Ser/Thr protein phosphatase with sulfate ion bound in two coordination modes; Biochemistry 39 15365-15374
    • (2000) Biochemistry , vol.39 , pp. 15365-15374
    • Voegtli, W.C.1    White, D.J.2    Reiter, N.J.3    Rusnak, F.4    Rosenzweig, A.C.5
  • 51
    • 0029129557 scopus 로고
    • Serine/threonine protein phosphatases
    • Wera S and Hemmings B A 1995 Serine/threonine protein phosphatases; Biochem. J. 311 17-29
    • (1995) Biochem. J. , vol.311 , pp. 17-29
    • Wera, S.1    Hemmings, B.A.2
  • 52
    • 0030872213 scopus 로고    scopus 로고
    • Mutational analysis of substrate recognition by protein phosphatase 1
    • Zhang L and Lee E Y 1997 Mutational analysis of substrate recognition by protein phosphatase 1; Biochemistry 36 8209-8214
    • (1997) Biochemistry , vol.36 , pp. 8209-8214
    • Zhang, L.1    Lee, E.Y.2
  • 53
    • 0027944142 scopus 로고
    • Mutational analysis of a Ser/Thr phosphatase. Identification of residues important in phosphoesterase substrate binding and catalysis
    • Zhuo S, Clemens J C, Stone R L and Dixon J E 1994 Mutational analysis of a Ser/Thr phosphatase. Identification of residues important in phosphoesterase substrate binding and catalysis; J. Biol. Chem. 269 26234-26238
    • (1994) J. Biol. Chem. , vol.269 , pp. 26234-26238
    • Zhuo, S.1    Clemens, J.C.2    Stone, R.L.3    Dixon, J.E.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.