메뉴 건너뛰기




Volumn 479-480, Issue , 2015, Pages 650-656

Old, new, and widely true: The bacteriophage T4 DNA packaging mechanism

Author keywords

A form DNA; DNA motors; DNA packaging; Helicase; Pac site; Terminase

Indexed keywords

VIRUS DNA; VIRUS PROTEIN;

EID: 84940004805     PISSN: 00426822     EISSN: 10960341     Source Type: Journal    
DOI: 10.1016/j.virol.2015.01.015     Document Type: Review
Times cited : (54)

References (60)
  • 1
    • 33745190954 scopus 로고    scopus 로고
    • Portal fusion protein constraints on function in DNA packaging of bacteriophage T4
    • Baumann R.G., Mullaney J., Black L.W. Portal fusion protein constraints on function in DNA packaging of bacteriophage T4. Mol. Microbiol. 2006, 61:16-32.
    • (2006) Mol. Microbiol. , vol.61 , pp. 16-32
    • Baumann, R.G.1    Mullaney, J.2    Black, L.W.3
  • 2
    • 0024452966 scopus 로고
    • DNA packaging in dsDNA bacteriophages
    • Black L.W. DNA packaging in dsDNA bacteriophages. Annu. Rev. Microbiol. 1989, 43:267-292.
    • (1989) Annu. Rev. Microbiol. , vol.43 , pp. 267-292
    • Black, L.W.1
  • 3
    • 0029556888 scopus 로고
    • DNA packaging and cutting by phage terminases: control in phage T4 by a synaptic mechanism
    • Black L.W. DNA packaging and cutting by phage terminases: control in phage T4 by a synaptic mechanism. BioEssays 1995, 17:1025-1030.
    • (1995) BioEssays , vol.17 , pp. 1025-1030
    • Black, L.W.1
  • 4
    • 33748748808 scopus 로고    scopus 로고
    • Mechanistic coupling of bacteriophage T4 DNA packaging to components of the replication-dependent late transcription machinery
    • Black L.W., Peng G. Mechanistic coupling of bacteriophage T4 DNA packaging to components of the replication-dependent late transcription machinery. J. Biol. Chem. 2006, 281:25635-25643.
    • (2006) J. Biol. Chem. , vol.281 , pp. 25635-25643
    • Black, L.W.1    Peng, G.2
  • 5
    • 0018122625 scopus 로고
    • Model for DNA packaging into bacteriophage T4 heads
    • Black L.W., Silverman D.J. Model for DNA packaging into bacteriophage T4 heads. J. Virol. 1978, 28:643-655.
    • (1978) J. Virol. , vol.28 , pp. 643-655
    • Black, L.W.1    Silverman, D.J.2
  • 9
    • 79956336700 scopus 로고    scopus 로고
    • Dynamics of the T4 bacteriophage DNA packasome motor: endonuclease VII resolvase release of arrested Y-DNA substrates
    • Dixit A., Ray K., Lakowicz J.R., Black L.W. Dynamics of the T4 bacteriophage DNA packasome motor: endonuclease VII resolvase release of arrested Y-DNA substrates. J. Biol. Chem. 2011, 286:18878-18889.
    • (2011) J. Biol. Chem. , vol.286 , pp. 18878-18889
    • Dixit, A.1    Ray, K.2    Lakowicz, J.R.3    Black, L.W.4
  • 10
    • 84870885884 scopus 로고    scopus 로고
    • Compression of the DNA substrate by a viral packaging motor is supported by removal of intercalating dye during translocation
    • Dixit A.B., Ray K., Black L.W. Compression of the DNA substrate by a viral packaging motor is supported by removal of intercalating dye during translocation. Proc. Natl. Acad. Sci. USA 2012, 109:20419-20424.
    • (2012) Proc. Natl. Acad. Sci. USA , vol.109 , pp. 20419-20424
    • Dixit, A.B.1    Ray, K.2    Black, L.W.3
  • 11
    • 84884574486 scopus 로고    scopus 로고
    • The C-terminal domain of the bacteriophage T4 terminase docks on the prohead portal clip region during DNA packaging
    • Dixit A.B., Ray K., Thomas J.A., Black L.W. The C-terminal domain of the bacteriophage T4 terminase docks on the prohead portal clip region during DNA packaging. Virology. 2013, 446:293-302.
    • (2013) Virology. , vol.446 , pp. 293-302
    • Dixit, A.B.1    Ray, K.2    Thomas, J.A.3    Black, L.W.4
  • 12
    • 36749028241 scopus 로고    scopus 로고
    • Single phage T4 DNA packaging motors exhibit large force generation, high velocity, and dynamic variability
    • Fuller D.N., Raymer D.M., Kottadiel V.I., Rao V.B., Smith D.E. Single phage T4 DNA packaging motors exhibit large force generation, high velocity, and dynamic variability. Proc. Natl. Acad. Sci. USA 2007, 104:16868-16873.
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 16868-16873
    • Fuller, D.N.1    Raymer, D.M.2    Kottadiel, V.I.3    Rao, V.B.4    Smith, D.E.5
  • 14
    • 0025376090 scopus 로고
    • A stable double-stranded DNA-ethidium homodimer complex: application to picogram fluorescence detection of DNA in agarose gels
    • Glazer A.N., Peck K., Mathies R.A. A stable double-stranded DNA-ethidium homodimer complex: application to picogram fluorescence detection of DNA in agarose gels. Proc. Natl. Acad. Sci. USA 1990, 87:3851-3855.
    • (1990) Proc. Natl. Acad. Sci. USA , vol.87 , pp. 3851-3855
    • Glazer, A.N.1    Peck, K.2    Mathies, R.A.3
  • 15
    • 0033593367 scopus 로고    scopus 로고
    • Association of holliday-structure resolving endonuclease VII with gp20 from the packaging machine of phage T4
    • Golz S., Kemper B. Association of holliday-structure resolving endonuclease VII with gp20 from the packaging machine of phage T4. J. Mol. Biol. 1999, 285:1131-1144.
    • (1999) J. Mol. Biol. , vol.285 , pp. 1131-1144
    • Golz, S.1    Kemper, B.2
  • 16
    • 0023660929 scopus 로고
    • Initiation events in in-vitro packaging of bacteriophage phi 29 DNA-gp3
    • Guo P., Peterson C., Anderson D. Initiation events in in-vitro packaging of bacteriophage phi 29 DNA-gp3. J. Mol. Biol. 1987, 197:219-228.
    • (1987) J. Mol. Biol. , vol.197 , pp. 219-228
    • Guo, P.1    Peterson, C.2    Anderson, D.3
  • 17
    • 84919673907 scopus 로고    scopus 로고
    • The scrunchworm hypothesis: transitions between A-DNA and B-DNA provide the driving force for genome packaging in double-stranded DNA bacteriophages
    • Harvey S.C. The scrunchworm hypothesis: transitions between A-DNA and B-DNA provide the driving force for genome packaging in double-stranded DNA bacteriophages. J. Struct. Biol. 2015, 189:1-8.
    • (2015) J. Struct. Biol. , vol.189 , pp. 1-8
    • Harvey, S.C.1
  • 18
    • 0039538633 scopus 로고
    • Symmetry mismatch and DNA packaging in large bacteriophages
    • Hendrix R.W. Symmetry mismatch and DNA packaging in large bacteriophages. Proc. Natl. Acad. Sci. USA 1978, 75:4779-4783.
    • (1978) Proc. Natl. Acad. Sci. USA , vol.75 , pp. 4779-4783
    • Hendrix, R.W.1
  • 20
    • 0017698623 scopus 로고
    • DNA packaging and the pathway of bacteriophage T4 head assembly
    • Hsiao C.L., Black L.W. DNA packaging and the pathway of bacteriophage T4 head assembly. Proc. Natl. Acad. Sci. USA. 1977, 74:3652-3656.
    • (1977) Proc. Natl. Acad. Sci. USA. , vol.74 , pp. 3652-3656
    • Hsiao, C.L.1    Black, L.W.2
  • 21
    • 1442276352 scopus 로고    scopus 로고
    • The high-resolution functional map of bacteriophage SPP1 portal protein
    • Isidro A., Santos M.A., Henriques A.O., Tavares P. The high-resolution functional map of bacteriophage SPP1 portal protein. Mol. Microbiol. 2004, 51:949-962.
    • (2004) Mol. Microbiol. , vol.51 , pp. 949-962
    • Isidro, A.1    Santos, M.A.2    Henriques, A.O.3    Tavares, P.4
  • 22
    • 84867538324 scopus 로고    scopus 로고
    • The hexameric helicase DnaB adopts a nonplanar conformation during translocation
    • Itsathitphaisarn O., Wing R.A., Eliason W.K., Wang J., Steitz T.A. The hexameric helicase DnaB adopts a nonplanar conformation during translocation. Cell 2012, 151:267-277.
    • (2012) Cell , vol.151 , pp. 267-277
    • Itsathitphaisarn, O.1    Wing, R.A.2    Eliason, W.K.3    Wang, J.4    Steitz, T.A.5
  • 23
    • 0015801657 scopus 로고
    • A genetic method for determining the order of events in a biological pathway
    • Jarvik J., Botstein D. A genetic method for determining the order of events in a biological pathway. Proc. Natl. Acad. Sci. USA. 1973, 70:2046-2050.
    • (1973) Proc. Natl. Acad. Sci. USA. , vol.70 , pp. 2046-2050
    • Jarvik, J.1    Botstein, D.2
  • 24
    • 84876571933 scopus 로고    scopus 로고
    • Switching from single-stranded to double-stranded DNA limits the unwinding processivity of ring-shaped T7 DNA helicase
    • Jeong Y.J., Rajagopal V., Patel S.S. Switching from single-stranded to double-stranded DNA limits the unwinding processivity of ring-shaped T7 DNA helicase. Nucleic Acids Res. 2013, 41:4219-4229.
    • (2013) Nucleic Acids Res. , vol.41 , pp. 4219-4229
    • Jeong, Y.J.1    Rajagopal, V.2    Patel, S.S.3
  • 26
    • 33749561425 scopus 로고    scopus 로고
    • The DNA translocating ATPase of bacteriophage T4 packaging motor
    • Kondabagil K.R., Zhang Z., Rao V.B. The DNA translocating ATPase of bacteriophage T4 packaging motor. J. Mol. Biol. 2006, 363:786-799.
    • (2006) J. Mol. Biol. , vol.363 , pp. 786-799
    • Kondabagil, K.R.1    Zhang, Z.2    Rao, V.B.3
  • 28
    • 0032030444 scopus 로고    scopus 로고
    • DNA requirements in vivo for phage T4 packaging
    • Lin H., Black L.W. DNA requirements in vivo for phage T4 packaging. Virology 1998, 242:118-127.
    • (1998) Virology , vol.242 , pp. 118-127
    • Lin, H.1    Black, L.W.2
  • 29
    • 0033523081 scopus 로고    scopus 로고
    • Analysis of capsid portal protein and terminase functional domains: interaction sites required for DNA packaging in bacteriophage T4
    • Lin H., Rao V.B., Black L.W. Analysis of capsid portal protein and terminase functional domains: interaction sites required for DNA packaging in bacteriophage T4. J. Mol. Biol. 1999, 289:249-260.
    • (1999) J. Mol. Biol. , vol.289 , pp. 249-260
    • Lin, H.1    Rao, V.B.2    Black, L.W.3
  • 30
    • 0031023655 scopus 로고    scopus 로고
    • Purification and characterization of the small subunit of phage T4 terminase, gp16, required for DNA packaging
    • Lin H., Simon M.N., Black L.W. Purification and characterization of the small subunit of phage T4 terminase, gp16, required for DNA packaging. J. Biol. Chem. 1997, 272:3495-3501.
    • (1997) J. Biol. Chem. , vol.272 , pp. 3495-3501
    • Lin, H.1    Simon, M.N.2    Black, L.W.3
  • 31
    • 84907279880 scopus 로고    scopus 로고
    • Viral nanoparticle-encapsidated enzyme and restructured DNA for cell delivery and gene expression
    • Liu J.L., Dixit A.B., Robertson K.L., Qiao E., Black L.W. Viral nanoparticle-encapsidated enzyme and restructured DNA for cell delivery and gene expression. Proc. Natl. Acad. Sci. USA 2014, 111:13319-13324.
    • (2014) Proc. Natl. Acad. Sci. USA , vol.111 , pp. 13319-13324
    • Liu, J.L.1    Dixit, A.B.2    Robertson, K.L.3    Qiao, E.4    Black, L.W.5
  • 33
    • 0015222932 scopus 로고
    • Bacteriophage T4 head morphogenesis. On the nature of gene 49-defective heads and their role as intermediates
    • Luftig R.B., Wood W.B., Okinaka R. Bacteriophage T4 head morphogenesis. On the nature of gene 49-defective heads and their role as intermediates. J. Mol. Biol. 1971, 57:555-573.
    • (1971) J. Mol. Biol. , vol.57 , pp. 555-573
    • Luftig, R.B.1    Wood, W.B.2    Okinaka, R.3
  • 34
    • 0036303629 scopus 로고    scopus 로고
    • A bipartite bacteriophage T4 SOC and HOC randomized peptide display library: detection and analysis of phage T4 terminase (gp17) and late sigma factor (gp55) interaction
    • Malys N., Chang D.Y., Baumann R.G., Xie D., Black L.W. A bipartite bacteriophage T4 SOC and HOC randomized peptide display library: detection and analysis of phage T4 terminase (gp17) and late sigma factor (gp55) interaction. J. Mol. Biol. 2002, 319:289-304.
    • (2002) J. Mol. Biol. , vol.319 , pp. 289-304
    • Malys, N.1    Chang, D.Y.2    Baumann, R.G.3    Xie, D.4    Black, L.W.5
  • 35
    • 0027299633 scopus 로고
    • DNA packaging ATPase of bacteriophage T3
    • Morita M.M., Tasaka M.M., Fujisawa H. DNA packaging ATPase of bacteriophage T3. Virology 1993, 193:748-752.
    • (1993) Virology , vol.193 , pp. 748-752
    • Morita, M.M.1    Tasaka, M.M.2    Fujisawa, H.3
  • 37
    • 0017709864 scopus 로고
    • Localization of minor protein components of the head of bacteriophage T4
    • Muller-Salamin L., Onorato L., Showe M.K. Localization of minor protein components of the head of bacteriophage T4. J. Virol. 1977, 24:121-134.
    • (1977) J. Virol. , vol.24 , pp. 121-134
    • Muller-Salamin, L.1    Onorato, L.2    Showe, M.K.3
  • 38
    • 46649088725 scopus 로고    scopus 로고
    • Modulation of the packaging reaction of bacteriophage t4 terminase by DNA structure
    • Oram M., Sabanayagam C., Black L.W. Modulation of the packaging reaction of bacteriophage t4 terminase by DNA structure. J. Mol. Biol. 2008, 381:61-72.
    • (2008) J. Mol. Biol. , vol.381 , pp. 61-72
    • Oram, M.1    Sabanayagam, C.2    Black, L.W.3
  • 39
    • 73649146975 scopus 로고    scopus 로고
    • Single-molecule and FRET fluorescence correlation spectroscopy analyses of phage DNA packaging: colocalization of packaged phage T4 DNA ends within the capsid
    • Ray K., Ma J., Oram M., Lakowicz J.R., Black L.W. Single-molecule and FRET fluorescence correlation spectroscopy analyses of phage DNA packaging: colocalization of packaged phage T4 DNA ends within the capsid. J. Mol. Biol. 2010, 395:1102-1113.
    • (2010) J. Mol. Biol. , vol.395 , pp. 1102-1113
    • Ray, K.1    Ma, J.2    Oram, M.3    Lakowicz, J.R.4    Black, L.W.5
  • 40
    • 67650735217 scopus 로고    scopus 로고
    • Portal control of viral prohead expansion and DNA packaging
    • Ray K., Oram M., Ma J., Black L.W. Portal control of viral prohead expansion and DNA packaging. Virology 2009, 391:44-50.
    • (2009) Virology , vol.391 , pp. 44-50
    • Ray, K.1    Oram, M.2    Ma, J.3    Black, L.W.4
  • 41
    • 75849131151 scopus 로고    scopus 로고
    • DNA crunching by a viral packaging motor: compression of a procapsid-portal stalled Y-DNA substrate
    • Ray K., Sabanayagam C.R., Lakowicz J.R., Black L.W. DNA crunching by a viral packaging motor: compression of a procapsid-portal stalled Y-DNA substrate. Virology 2010, 398:224-232.
    • (2010) Virology , vol.398 , pp. 224-232
    • Ray, K.1    Sabanayagam, C.R.2    Lakowicz, J.R.3    Black, L.W.4
  • 42
    • 33751218319 scopus 로고    scopus 로고
    • Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching
    • Revyakin A., Liu C., Ebright R.H., Strick T.R. Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching. Science 2006, 314:1139-1143.
    • (2006) Science , vol.314 , pp. 1139-1143
    • Revyakin, A.1    Liu, C.2    Ebright, R.H.3    Strick, T.R.4
  • 43
    • 84864834137 scopus 로고    scopus 로고
    • Small terminase couples viral DNA binding to genome-packaging ATPase activity
    • Roy A., Bhardwaj A., Datta P., Lander G.C., Cingolani G. Small terminase couples viral DNA binding to genome-packaging ATPase activity. Structure 2012, 20:1403-1413.
    • (2012) Structure , vol.20 , pp. 1403-1413
    • Roy, A.1    Bhardwaj, A.2    Datta, P.3    Lander, G.C.4    Cingolani, G.5
  • 44
    • 84864848769 scopus 로고    scopus 로고
    • Structure of p22 headful packaging nuclease
    • Roy A., Cingolani G. Structure of p22 headful packaging nuclease. J. Biol. Chem. 2012, 287:28196-28205.
    • (2012) J. Biol. Chem. , vol.287 , pp. 28196-28205
    • Roy, A.1    Cingolani, G.2
  • 45
    • 34548216327 scopus 로고    scopus 로고
    • Viral DNA packaging studied by fluorescence correlation spectroscopy
    • Sabanayagam C.R., Oram M., Lakowicz J.R., Black L.W. Viral DNA packaging studied by fluorescence correlation spectroscopy. Biophys. J. 2007, 93:L17-L19.
    • (2007) Biophys. J. , vol.93 , pp. L17-L19
    • Sabanayagam, C.R.1    Oram, M.2    Lakowicz, J.R.3    Black, L.W.4
  • 46
    • 84867535244 scopus 로고    scopus 로고
    • A helicase with an extra spring in its step
    • Schlierf M., Ha T. A helicase with an extra spring in its step. Cell 2012, 151:244-246.
    • (2012) Cell , vol.151 , pp. 244-246
    • Schlierf, M.1    Ha, T.2
  • 47
    • 84885375152 scopus 로고    scopus 로고
    • Dualities in the analysis of phage DNA packaging motors
    • Serwer P., Jiang W. Dualities in the analysis of phage DNA packaging motors. Bacteriophage 2012, 2:239-255.
    • (2012) Bacteriophage , vol.2 , pp. 239-255
    • Serwer, P.1    Jiang, W.2
  • 49
    • 0035909370 scopus 로고    scopus 로고
    • The bacteriophage straight phi29 portal motor can package DNA against a large internal force
    • Smith D.E., Tans S.J., Smith S.B., Grimes S., Anderson D.L., Bustamante C. The bacteriophage straight phi29 portal motor can package DNA against a large internal force. Nature 2001, 413:748-752.
    • (2001) Nature , vol.413 , pp. 748-752
    • Smith, D.E.1    Tans, S.J.2    Smith, S.B.3    Grimes, S.4    Anderson, D.L.5    Bustamante, C.6
  • 50
    • 84856402988 scopus 로고    scopus 로고
    • Structure and function of the small terminase component of the DNA packaging machine in T4-like bacteriophages
    • Sun S., Gao S., Kondabagil K., Xiang Y., Rossmann M.G., Rao V.B. Structure and function of the small terminase component of the DNA packaging machine in T4-like bacteriophages. Proc. Natl. Acad. Sci. USA 2012, 109:817-822.
    • (2012) Proc. Natl. Acad. Sci. USA , vol.109 , pp. 817-822
    • Sun, S.1    Gao, S.2    Kondabagil, K.3    Xiang, Y.4    Rossmann, M.G.5    Rao, V.B.6
  • 52
    • 33947281384 scopus 로고    scopus 로고
    • The structure of the ATPase that powers DNA packaging into bacteriophage T4 procapsids
    • Sun S., Kondabagil K., Gentz P.M., Rossmann M.G., Rao V.B. The structure of the ATPase that powers DNA packaging into bacteriophage T4 procapsids. Mol. Cell 2007, 25:943-949.
    • (2007) Mol. Cell , vol.25 , pp. 943-949
    • Sun, S.1    Kondabagil, K.2    Gentz, P.M.3    Rossmann, M.G.4    Rao, V.B.5
  • 53
    • 84864851005 scopus 로고    scopus 로고
    • Themes and variations of viral small terminase proteins
    • Teschke C.M. Themes and variations of viral small terminase proteins. Structure 2012, 20:1291-1292.
    • (2012) Structure , vol.20 , pp. 1291-1292
    • Teschke, C.M.1
  • 54
    • 77952879872 scopus 로고    scopus 로고
    • Current limitations in native mass spectrometry based structural biology
    • van Duijn E. Current limitations in native mass spectrometry based structural biology. J. Am. Soc. Mass Spectrom. 2010, 21:971-978.
    • (2010) J. Am. Soc. Mass Spectrom. , vol.21 , pp. 971-978
    • van Duijn, E.1
  • 55
    • 0028955517 scopus 로고
    • Mutational analysis of the sequence-specific recombination box for amplification of gene 17 of bacteriophage T4
    • Wu C.H., Black L.W. Mutational analysis of the sequence-specific recombination box for amplification of gene 17 of bacteriophage T4. J. Mol. Biol. 1995, 247:604-617.
    • (1995) J. Mol. Biol. , vol.247 , pp. 604-617
    • Wu, C.H.1    Black, L.W.2
  • 56
    • 0028916757 scopus 로고
    • Bacteriophage T4 gene 17 amplification mutants: evidence for initiation by the T4 terminase subunit gp16
    • Wu C.H., Lin H., Black L.W. Bacteriophage T4 gene 17 amplification mutants: evidence for initiation by the T4 terminase subunit gp16. J. Mol. Biol. 1995, 247:523-528.
    • (1995) J. Mol. Biol. , vol.247 , pp. 523-528
    • Wu, C.H.1    Lin, H.2    Black, L.W.3
  • 57
    • 0023660544 scopus 로고
    • Gene amplification mechanism for the hyperproduction of T4 bacteriophage gene 17 and 18 proteins
    • Wu D.G., Black L.W. Gene amplification mechanism for the hyperproduction of T4 bacteriophage gene 17 and 18 proteins. J. Mol. Biol. 1987, 195:769-783.
    • (1987) J. Mol. Biol. , vol.195 , pp. 769-783
    • Wu, D.G.1    Black, L.W.2
  • 58
    • 0025780570 scopus 로고
    • Reiterated gene amplifications at specific short homology sequences in phage T4 produce Hp17 mutants
    • Wu D.G., Wu C.H., Black L.W. Reiterated gene amplifications at specific short homology sequences in phage T4 produce Hp17 mutants. J. Mol. Biol. 1991, 218:705-721.
    • (1991) J. Mol. Biol. , vol.218 , pp. 705-721
    • Wu, D.G.1    Wu, C.H.2    Black, L.W.3
  • 59
    • 84877853462 scopus 로고    scopus 로고
    • Structures of the phage Sf6 large terminase provide new insights into DNA translocation and cleavage
    • Zhao H., Christensen T.E., Kamau Y.N., Tang L. Structures of the phage Sf6 large terminase provide new insights into DNA translocation and cleavage. Proc. Natl. Acad. Sci. USA 2013, 110:8075-8080.
    • (2013) Proc. Natl. Acad. Sci. USA , vol.110 , pp. 8075-8080
    • Zhao, H.1    Christensen, T.E.2    Kamau, Y.N.3    Tang, L.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.