메뉴 건너뛰기




Volumn 138, Issue 5, 2005, Pages 583-592

Solution RNA structures of the HIV-1 dimerization initiation site in the kissing-loop and extended-duplex dimers

Author keywords

DIS; HIV 1; NMR; RNA; Structure

Indexed keywords

BULGE34 RNA; DIMER; EXTENDED DUPLEX DIMER; GENOMIC RNA; KISSING LOOP DIMER; LOOP25 RNA; UNCLASSIFIED DRUG; VIRUS RNA;

EID: 30344435591     PISSN: 0021924X     EISSN: None     Source Type: Journal    
DOI: 10.1093/jb/mvi158     Document Type: Article
Times cited : (52)

References (34)
  • 2
    • 0030899860 scopus 로고    scopus 로고
    • Mutations in the kissing-loop hairpin of human immunodeficiency virus type 1 reduce viral infectivity as well as genomic RNA packaging and dimerization
    • Laughrea, M., Jette, L., Mak, J., Kleiman, L., Liang, C., and Wainberg, M.A. (1997) Mutations in the kissing-loop hairpin of human immunodeficiency virus type 1 reduce viral infectivity as well as genomic RNA packaging and dimerization. J. Virol. 71, 3397-3406
    • (1997) J. Virol. , vol.71 , pp. 3397-3406
    • Laughrea, M.1    Jette, L.2    Mak, J.3    Kleiman, L.4    Liang, C.5    Wainberg, M.A.6
  • 3
    • 0030940477 scopus 로고    scopus 로고
    • Mutant human immunodeficiency virus type 1 genomes with defects in RNA dimerization or encapsidation
    • Clever, J.L. and Parslow, T.G. (1997) Mutant human immunodeficiency virus type 1 genomes with defects in RNA dimerization or encapsidation. J. Virol. 71, 3407-3414
    • (1997) J. Virol. , vol.71 , pp. 3407-3414
    • Clever, J.L.1    Parslow, T.G.2
  • 4
    • 0029861557 scopus 로고    scopus 로고
    • A dual role of the putative RNA dimerization initiation site of human immunodeficiency virus type 1 in genomic RNA packaging and proviral DNA synthesis
    • Paillart, J.C., Berthoux, L., Ottmann, M., Darlix, J.L., Marquet, R., Ehresmann, B., and Ehresmann, C. (1996) A dual role of the putative RNA dimerization initiation site of human immunodeficiency virus type 1 in genomic RNA packaging and proviral DNA synthesis. J. Virol. 70, 8348-8354
    • (1996) J. Virol. , vol.70 , pp. 8348-8354
    • Paillart, J.C.1    Berthoux, L.2    Ottmann, M.3    Darlix, J.L.4    Marquet, R.5    Ehresmann, B.6    Ehresmann, C.7
  • 5
    • 0028027708 scopus 로고
    • A 19-nucleotide sequence upstream of the 5′ major splice donor is part of the dimerization domain of human immunodeficiency virus 1 genomic RNA
    • Laughrea, M. and Jette, L. (1994) A 19-nucleotide sequence upstream of the 5′ major splice donor is part of the dimerization domain of human immunodeficiency virus 1 genomic RNA. Biochemistry 33, 13464-13474
    • (1994) Biochemistry , vol.33 , pp. 13464-13474
    • Laughrea, M.1    Jette, L.2
  • 6
    • 0028239204 scopus 로고
    • Identification of the primary site of the human immunodeficiency virus type 1 RNA dimerization in vitro
    • Skripkin, E., Paillart, J.C., Marquet, R., Ehresmann, B., and Ehresmann, C. (1994) Identification of the primary site of the human immunodeficiency virus type 1 RNA dimerization in vitro. Proc. Natl. Acad. Sci. USA 91, 4945-4949
    • (1994) Proc. Natl. Acad. Sci. USA , vol.91 , pp. 4945-4949
    • Skripkin, E.1    Paillart, J.C.2    Marquet, R.3    Ehresmann, B.4    Ehresmann, C.5
  • 7
    • 0027176378 scopus 로고
    • Maturation of dimeric viral RNA of Moloney murine leukemia virus
    • Fu, W. and Rein, A. (1993) Maturation of dimeric viral RNA of Moloney murine leukemia virus. J. Virol. 67, 5443-5449
    • (1993) J. Virol. , vol.67 , pp. 5443-5449
    • Fu, W.1    Rein, A.2
  • 8
    • 0028338652 scopus 로고
    • Characterization of human immunodeficiency virus type 1 dimeric RNA from wild-type and protease-defective virions
    • Fu, W., Gorelick, R.J., and Rein, A. (1994) Characterization of human immunodeficiency virus type 1 dimeric RNA from wild-type and protease-defective virions. J. Virol. 68, 5013-5018
    • (1994) J. Virol. , vol.68 , pp. 5013-5018
    • Fu, W.1    Gorelick, R.J.2    Rein, A.3
  • 9
    • 0030019828 scopus 로고    scopus 로고
    • Kissing-loop model of HIV-1 genome dimerization: HIV-1 RNAs can assume alternative dimeric forms, and all sequences upstream or downstream of hairpin 248-271 are dispensable for dimer formation
    • Laughrea, M. and Jette, L. (1996) Kissing-loop model of HIV-1 genome dimerization: HIV-1 RNAs can assume alternative dimeric forms, and all sequences upstream or downstream of hairpin 248-271 are dispensable for dimer formation. Biochemistry 35, 1589-1598
    • (1996) Biochemistry , vol.35 , pp. 1589-1598
    • Laughrea, M.1    Jette, L.2
  • 10
    • 0029868164 scopus 로고    scopus 로고
    • A kissing complex together with a stable dimer is involved in the HIV- 1Lai RNA dimerization process in vitro
    • Muriaux, D., Fosse, P., and Paoletti, J. (1996) A kissing complex together with a stable dimer is involved in the HIV- 1Lai RNA dimerization process in vitro. Biochemistry 35, 5075-5082
    • (1996) Biochemistry , vol.35 , pp. 5075-5082
    • Muriaux, D.1    Fosse, P.2    Paoletti, J.3
  • 11
    • 0028986869 scopus 로고
    • Dimerization of HIV-1Lai RNA at low ionic strength. An autocomplementary sequence in the 5′ leader region is evidenced by an antisense oligonucleotide
    • Muriaux, D., Girard, P.M., Bonnet-Mathoniere, B., and Paoletti, J. (1995) Dimerization of HIV-1Lai RNA at low ionic strength. An autocomplementary sequence in the 5′ leader region is evidenced by an antisense oligonucleotide. J. Biol. Chem. 270, 8209-8216
    • (1995) J. Biol. Chem. , vol.270 , pp. 8209-8216
    • Muriaux, D.1    Girard, P.M.2    Bonnet-Mathoniere, B.3    Paoletti, J.4
  • 12
    • 0035264640 scopus 로고    scopus 로고
    • Role of distal zinc finger of nucleocapsid protein in genomic RNA dimerization of human immunodeficiency virus type 1; No role for the palindrome crowning the R-U5 hairpin
    • Laughrea, M., Shen, N., Jette, L., Darlix, J., Kleiman, L., and Wainberg, M.A. (2001) Role of distal zinc finger of nucleocapsid protein in genomic RNA dimerization of human immunodeficiency virus type 1; No role for the palindrome crowning the R-U5 hairpin. Virology 281, 109-116
    • (2001) Virology , vol.281 , pp. 109-116
    • Laughrea, M.1    Shen, N.2    Jette, L.3    Darlix, J.4    Kleiman, L.5    Wainberg, M.A.6
  • 13
    • 2242469712 scopus 로고    scopus 로고
    • Structure of the HIV-1 nucleocapsid protein bound to the SL3 ψ-RNA recognition element
    • de Guzman, R.N., Wu, Z.R., Stalling, C.C., Pappalardo, L., Borer, P.N., and Summers, M.F. (1998) Structure of the HIV-1 nucleocapsid protein bound to the SL3 ψ-RNA recognition element. Science 279, 384-388
    • (1998) Science , vol.279 , pp. 384-388
    • De Guzman, R.N.1    Wu, Z.R.2    Stalling, C.C.3    Pappalardo, L.4    Borer, P.N.5    Summers, M.F.6
  • 14
    • 0034636984 scopus 로고    scopus 로고
    • NMR structure of the HIV-1 nucleocapsid protein bound to Stem-Loop SL2 of the ψ-RNA packaging signal. Implications for Genome recognition
    • Amarasinghe, G.K., de Guzman, R.N., Turner, B.G., Chancellor, K.J., Wu, Z.R., and Summers, M.F. (2000) NMR structure of the HIV-1 nucleocapsid protein bound to Stem-Loop SL2 of the ψ-RNA packaging signal. Implications for Genome recognition. J. Mol. Biol. 301, 491-511
    • (2000) J. Mol. Biol. , vol.301 , pp. 491-511
    • Amarasinghe, G.K.1    De Guzman, R.N.2    Turner, B.G.3    Chancellor, K.J.4    Wu, Z.R.5    Summers, M.F.6
  • 16
    • 4344623806 scopus 로고    scopus 로고
    • Nucleocapsid protein chaperoning of nucleic acids at the heart of HIV structure, assembly and cDNA synthesis
    • (Kuiken, C., Foley, B., Freed, E., Hahn, B., Marx, P., McCutchan, F., Mellors, J.W., Wolinsky, S., and Korber, B., eds.), Los Alamos National Laboratory, Los Alamos, NM
    • Darlix, J.L., Lopez-Lastra, M., Mély, Y., and Roques, B. (2003) Nucleocapsid protein chaperoning of nucleic acids at the heart of HIV structure, assembly and cDNA synthesis. In HIV Sequence Compendium 2002 (Kuiken, C., Foley, B., Freed, E., Hahn, B., Marx, P., McCutchan, F., Mellors, J.W., Wolinsky, S., and Korber, B., eds.) pp. 69-88, Los Alamos National Laboratory, Los Alamos, NM
    • (2003) HIV Sequence Compendium 2002 , pp. 69-88
    • Darlix, J.L.1    Lopez-Lastra, M.2    Mély, Y.3    Roques, B.4
  • 17
    • 0035903093 scopus 로고    scopus 로고
    • Two basic regions of NCp7 are sufficient for conformational conversion of HIV-1 dimerization initiation site from kissing-loop dimer to extended-duplex dimer
    • Takahashi, K., Baba, S., Koyanagi, Y., Yamamoto, N., Takaku, H., and Kawai, G. (2001) Two basic regions of NCp7 are sufficient for conformational conversion of HIV-1 dimerization initiation site from kissing-loop dimer to extended-duplex dimer. J. Biol. Chem. 276, 31274-31278
    • (2001) J. Biol. Chem. , vol.276 , pp. 31274-31278
    • Takahashi, K.1    Baba, S.2    Koyanagi, Y.3    Yamamoto, N.4    Takaku, H.5    Kawai, G.6
  • 20
    • 0035184520 scopus 로고    scopus 로고
    • Crystal structures of coaxially-stacked kissing complexes of the HIV-1 RNA dimerization initiation site
    • Ennifar, E., Walter, P., Ehresmann, B., Ehresmann, C., and Dumas, P. (2001) Crystal Structures of Coaxially-Stacked Kissing Complexes of the HIV-1 RNA Dimerization Initiation Site. Nat. Struct. Biol. 8, 1064-1068
    • (2001) Nat. Struct. Biol. , vol.8 , pp. 1064-1068
    • Ennifar, E.1    Walter, P.2    Ehresmann, B.3    Ehresmann, C.4    Dumas, P.5
  • 22
    • 0032827716 scopus 로고    scopus 로고
    • NMR structure of the mature dimer initiation complex of HIV-1 genomic RNA
    • Mujeeb, A., Parslow, T.G., Zarrinpar, A., Das, C., and James, T.L. (1999) NMR structure of the mature dimer initiation complex of HIV-1 genomic RNA. FEBS Lett. 458, 387-392
    • (1999) FEBS Lett. , vol.458 , pp. 387-392
    • Mujeeb, A.1    Parslow, T.G.2    Zarrinpar, A.3    Das, C.4    James, T.L.5
  • 23
    • 0033571104 scopus 로고    scopus 로고
    • The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges
    • Ennifar, E., Yusupov, M., Walter, P., Marquet, R., Ehresmann, B., Ehresmann, C., and Dumas, P. (1999) The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges. Structure Fold Des. 7, 1439-1449
    • (1999) Structure Fold Des. , vol.7 , pp. 1439-1449
    • Ennifar, E.1    Yusupov, M.2    Walter, P.3    Marquet, R.4    Ehresmann, B.5    Ehresmann, C.6    Dumas, P.7
  • 24
    • 0038719800 scopus 로고    scopus 로고
    • A crystallographic study of the binding of 13 metal ions to two related RNA duplexes
    • Ennifar, E., Walter, P., and Dumas, P. (2003) A Crystallographic Study of the Binding of 13 Metal Ions to Two Related RNA Duplexes. Nucleic Acids Res. 31, 2671-2682
    • (2003) Nucleic Acids Res. , vol.31 , pp. 2671-2682
    • Ennifar, E.1    Walter, P.2    Dumas, P.3
  • 25
    • 0036385821 scopus 로고    scopus 로고
    • Structure and stability of wild-type and mutant RNA internal loops from the SL-1 domain of the HIV-1 packaging signal
    • Greatorex, J., Gallego, J., Varani, G., and Lever, A. (2002) Structure and Stability of Wild-Type and Mutant RNA Internal Loops from the SL-1 Domain of the HIV-1 Packaging Signal. J.Mol.Biol. 322, 543-557
    • (2002) J. Mol. Biol. , vol.322 , pp. 543-557
    • Greatorex, J.1    Gallego, J.2    Varani, G.3    Lever, A.4
  • 26
    • 0037436349 scopus 로고    scopus 로고
    • Structure of the intact stem and bulge of HIV-1 Psi-RNA stem-loop Sl1
    • Lawrence, D.C., Stover, C.C., Noznitsky, J., Wu, Z., and Summers, M.F. (2003) Structure of the Intact Stem and Bulge of HIV-1 Psi-RNA Stem-Loop Sl1. J. Mol. Biol. 326, 529-542
    • (2003) J. Mol. Biol. , vol.326 , pp. 529-542
    • Lawrence, D.C.1    Stover, C.C.2    Noznitsky, J.3    Wu, Z.4    Summers, M.F.5
  • 27
    • 0038558250 scopus 로고    scopus 로고
    • Stem of SL1 RNA in HIV-1: Structure and nucleocapsid protein binding for a 1 x 3 internal loop
    • Yuan, Y., Kerwood, D.J., Paoletti, A.C., Shubsda, M.F., and Borer, P.N. (2003) Stem of SL1 RNA in HIV-1: structure and nucleocapsid protein binding for a 1 x 3 internal loop. Biochemistry 42, 5259-5269
    • (2003) Biochemistry , vol.42 , pp. 5259-5269
    • Yuan, Y.1    Kerwood, D.J.2    Paoletti, A.C.3    Shubsda, M.F.4    Borer, P.N.5
  • 28
    • 0034074812 scopus 로고    scopus 로고
    • Impact of human immunodeficiency virus type 1 RNA dimerization on viral infectivity and of stem-loop B on RNA dimerization and reverse transcription and dissociation of dimerization from packaging
    • Shen, N., Jette, L., Liang, C., Wainberg, M.A., and Laughrea, M. (2000) Impact of human immunodeficiency virus type 1 RNA dimerization on viral infectivity and of stem-loop B on RNA dimerization and reverse transcription and dissociation of dimerization from packaging. J. Virol. 74, 5729-5735
    • (2000) J. Virol. , vol.74 , pp. 5729-5735
    • Shen, N.1    Jette, L.2    Liang, C.3    Wainberg, M.A.4    Laughrea, M.5
  • 29
    • 0033959583 scopus 로고    scopus 로고
    • Structural requirement for the two-step dimerization of human immunodeficiency virus type 1 genome
    • Takahashi, K.I., Baba, S., Chattopadhyay, P., Koyanagi, Y., Yamamoto, N., Takaku, H., and Kawai, G. (2000) Structural requirement for the two-step dimerization of human immunodeficiency virus type 1 genome. RNA 6, 96-102
    • (2000) RNA , vol.6 , pp. 96-102
    • Takahashi, K.I.1    Baba, S.2    Chattopadhyay, P.3    Koyanagi, Y.4    Yamamoto, N.5    Takaku, H.6    Kawai, G.7
  • 31
    • 0034007904 scopus 로고    scopus 로고
    • NMR analysis on intra- and inter-molecular stems in the dimerization initiation site of the HIV-1 genome
    • Takahashi, K., Baba, S., Hayashi, S., Koyanagi, Y., Yamamoto, N., Takaku, H., and Kawai, G. (2000) NMR analysis on intra- and inter-molecular stems in the dimerization initiation site of the HIV-1 genome. J. Biochem. 127, 681-639
    • (2000) J. Biochem. , vol.127 , pp. 681-1639
    • Takahashi, K.1    Baba, S.2    Hayashi, S.3    Koyanagi, Y.4    Yamamoto, N.5    Takaku, H.6    Kawai, G.7
  • 32
    • 0031977440 scopus 로고    scopus 로고
    • Infectious molecular clones with the nonhomologous dimer initiation sequences found in different subtypes of human immunodeficiency virus type 1 can recombine and initiate a spreading infection in vitro
    • St.Louis, D.C., Gotte, D., Sanders-Buell, E., Ritchey, D.W., Salminen, M.O., Carr, J.K., and McCutchan, F.E. (1998) Infectious molecular clones with the nonhomologous dimer initiation sequences found in different subtypes of human immunodeficiency virus type 1 can recombine and initiate a spreading infection in vitro. J. Virol. 72, 3991-3998
    • (1998) J. Virol. , vol.72 , pp. 3991-3998
    • St.Louis, D.C.1    Gotte, D.2    Sanders-Buell, E.3    Ritchey, D.W.4    Salminen, M.O.5    Carr, J.K.6    McCutchan, F.E.7
  • 33
    • 4944259254 scopus 로고    scopus 로고
    • Determination of thermodynamic parameters for HIV DIS type loop-loop kissing complexes
    • Weixlbaumer, A., Werner, A., Flamm, C., Westhof, E., and Schroeder, R. (2004) Determination of thermodynamic parameters for HIV DIS type loop-loop kissing complexes. Nucleic Acids Res. 32, 5126-5133
    • (2004) Nucleic Acids Res. , vol.32 , pp. 5126-5133
    • Weixlbaumer, A.1    Werner, A.2    Flamm, C.3    Westhof, E.4    Schroeder, R.5
  • 34


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.