Identification and mutational analysis of bacteriophage PRD1 holin protein P35

Journal of Bacteriology

Volumn 185, Issue 13, 2003, Pages 3795-3803

  Rydman, Pia S ^a,c   Bamford, Dennis H ^a,b  

^a UNIVERSITY OF HELSINKI   (Finland)

^b UNIVERSITY OF HELSINKI   (Finland)

^c GeneOS Ltd   (Finland)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; HOLIN; HYDROLASE; MEMBRANE PROTEIN; PEPTIDOGLYCAN; UNCLASSIFIED DRUG; VIRUS PROTEIN;

ARTICLE; BACTERIOPHAGE; BACTERIOPHAGE LAMBDA; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; CYTOLYSIS; GENE FUNCTION; GENE IDENTIFICATION; GENE INSERTION; GENE MUTATION; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC DISORDER; HOST CELL; MISSENSE MUTATION; NONHUMAN; NONSENSE MUTATION; PRIORITY JOURNAL; PROGENY; SEQUENCE ANALYSIS;

BACTERIAL OUTER MEMBRANE PROTEINS; BACTERIAL PROTEINS; BACTERIOLYSIS; BACTERIOPHAGE PRD1; BASE SEQUENCE; CLONING, MOLECULAR; DNA MUTATIONAL ANALYSIS; ESCHERICHIA COLI; LIPOPROTEINS; MEMBRANE PROTEINS; MOLECULAR SEQUENCE DATA; MUTATION; N-ACETYLMURAMOYL-L-ALANINE AMIDASE; SALMONELLA TYPHIMURIUM; VIRAL PROTEINS;

BACTERIOPHAGE LAMBDA; INSERTION SEQUENCES;

EID: 0037701543     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.185.13.3795-3803.2003     Document Type: Article

References (54)

1. Bamford, D., and L. Mindlich. 1982. Structure of the lipid-containing bacteriophage PRD1: disruption of wild-type and nonsense mutant phage particles with guanidine hydrochloride. J. Virol. 44:1031-1038.
2. Bamford, D. H., and H.-W. Ackermann. 2000. Family Tectiviridae, p. 111-116. In M. H. V. van Regenmortel, C. M. Fauquet, D. H. L. Bishop, E. B. Carstens, M. K. Estes, S. M. Lemon, J. Maniloff, M. A. Mayo, D. J. McGeoch, C. R. Pringle, and R. B. Wickner (ed.), Virus taxonomy. Classification and nomenclature of viruses. Academic Press, San Diego, Calif.
3. Bamford, D. H., J. Caldentey, and J. K. H. Bamford. 1995. Bacteriophage PRD1: a broad host range dsDNA tectivirus with an internal membrane. Adv. Virus Res. 45:281-319.
4. Bamford, D. H., and L. Mindich. 1980. Electron microscopy of cells infected with nonsense mutants of bacteriophage phi6. Virology 710:222-228.
5. Bamford, J. K., J. J. Cockburn, J. Diprose, J. M. Grimes, G. Sutton, D. I. Stuart, and D. H. Ramford. 2002. Diffraction quality crystals of PRD1, a 66-MDa dsDNA virus with an internal membrane. J. Struct. Biol. 139:103-112.
6. Bamford, J. K. H., and D. H. Bamford. 1990. Capsomer proteins of bacteriophage PRD1, a bacterial virus with a membrane. Virology 177:445-451.
7. Bamford, J. K. H., A.-L. Hänninen, T. M. Pakula, P. M. Ojala, N. Kalkkinen, M. Frilander, and D. H. Bamford. 1991. Genome organization of membrane-containing bacteriophage PRD1. Virology 183:658-676.
8. Barenboim, M., C.-Y. Chang, F. dib Hajj, and R. Young. 1999. Characterization of the dual start motif of a class II holin gene. Mol. Microbiol. 32:715-727.
9. Bartolomé, B., Y. Jubete, E. Martínez, and F. de la Cruz. 1991. Construction and properties of a family of pACYC184-derived cloning vectors compatible with pBR322 and its derivatives. Gene 102:75-78.
10. Bläsi, U., P. Fraisl, C.-Y. Chang, N. Zhang, and R. Young. 1999. The C-terminal sequence of the lambda bolin constitutes a cytoplasmic regulatory domain. J. Bacteriol. 181:2922-2929.
11. Bläsi, U., and R. Young. 1996. Two beginnings for a single purpose: the dual start holins in the regulation of phage lysis. Mol. Microbiol. 21:675-682.
12. Bradford, M. M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72:248-254.
13. Butcher, S. J., D. H. Bamford, and S. D. Fuller. 1995. DNA packaging orders the membrane of bacteriophage PRD1. EMBO J. 14:6078-6086.
14. Caldentey, J., A.-L. Hänninen, and D. H. Bamford. 1994. Gene XV of bacteriophage PRD1 encodes a lytic enzyme with muramidase activity. J. Eur. Biochem. 225:341-346.
15. Campbell, J. L., C. C. Richardson, and F. W. Studier. 1978. Genetic recombination and complementation between bacteriophage T7 and cloned fragments of T7 DNA. Proc. Natl. Acad. Sci. USA 7S:2276-2280.
16. Davis, T. N., E. D. Muller, and J. E. Cronan, Jr. 1982. The virion of the lipid-containing bacteriophage PR4. Virology. 120:287-306.
17. Garrett, J., and R. Young. 1982. Lethal action of the bacteriophage lambda S gene. J. Virol 44:886-892.
18. Grahn, A. M., J. K. H. Bamford, M. C. O'Neill, and D. H. Bamford. 1994. Functional organization of the bacteriophage PRD1 genome. J. Bacteriol. 176:3062-3068.
19. Grahn, A. M., S. J. Butcher, J. K. H. Bamford, and D. H. Bamford. PRD1 - Dissecting the genome, structure and entry. In R. Calendar (ed.), The bacteriophages, in press. Oxford Press, Oxford, United Kingdom.
20. Grahn, A. M., R. Daugelavicius, and D. H. Bamford. 2002. Sequential model of phage PRD1 DNA delivery: active involvement of the viral membrane. Mol. Microbiol. 46:1199-1209.
21. Graschopf, A., and U. Bläsi. 1999. Molecular function of the dual-start motif in the lambda S holin. Mol. Microbiol. 33:569-582.
22. Gründling, A., U. Bläsi, and R. Young. 2000. Genetic and biochemical evidence for three transmembrane domains in the class I holin, lambda S. J. Biol. Chem. 275:769-776.
23. Gründling, A., M. D. Manson, and R. Young. 2001. Holins kill without warning. Proc. Natl. Acad. Sci. USA 98:9348-9352.
24. Hänninen, A.-L., D. H. Bamford, and J. K. H. Bamford. 1997. Probing the phage PRD1 specific proteins during infection by monoclonal and polyclonal antibodies. Virology 227:198-206.
25. Hausmann, R. 1988. The T7 group, p. 259-290. In R. Calendar (ed.), The bacteriophages. Plenum Press, New York, N.Y.
26. Hofmann, K., and W. Stoffel. 1993. TMbase - database of membrane spanning protein segments. Biol. Chem. Hoppe-Seyler. 374:166.
27. Johnson-Boaz, R., C.-Y. Chang, and R. Young. 1994. A dominant mutation in the bacteriophage lambda S gene causes premature lysis and an absolute defective plating phenotype. Mol. Microbiol. 13:495-504.
28. Kotilainen, M. M., A. M. Grahn, J. K. H. Bamford, and D. H. Bamford. 1993. Binding of an Escherichia coli double-stranded DNA virus PRD1 to a receptor coded by an 1ncP-type plasmid. J. Bacteriol. 175:3089-3095.
29. Krogh, A., B. Larsson, G. von Heijne, and E. L. L. Sonnhammer. 2001. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305:567-580.
30. LaVallie, E. R., E. A. DiBlasio, S. Kovacic, K. L. Grant, P. F. Schendel, and J. M. McCoy. 1993. A thioredoxin gene fusion expression system that circumvents inclusion body formation in the E. coli cytoplasm. Bio/Technology 11:187-193.
31. Lundström, K. H., D. H. Bamford, E. T. Palva, and K. Lounatmaa. 1979. Lipid-containing bacteriophage PR4: structure and life cycle. J. Gen. Virol. 43:538-592.
32. Mindich, L., D. Bamfod, C. Goldthwaite, M. Laverty, and G. Mackenzie. 1982. Isolation of nonsense mutants of lipid-containing bacteriophage PRD1 J. Virol. 44:1013-1020.
33. Mindich, L., D. Bamford, T. McGraw, and G. Mackenzie. 1982. Assembly of bacteriophage PRD1: particle formation with wild-type and mutant viruses. J. Virol. 44:1021-1030.
34. Mindich, L., J. Cohen, and M. Weisburd. 1976. Isolation of nonsense suppressor mutants in Pseudomonas. J. Bacteriol. 126:177-182.
35. Mindich, L., and T. McGraw. 1983. Molecular cloning of bacteriophage PRD1 genomic fragments. Mol. Gen. Genet. 190:233-236.
36. Moffatt, B. A., and F. W. Studier. 1987. T7 lysozyme inhibits transcription by T7 RNA polymerase. Cell 49:221-227.
37. Olkkonen, V. M., and D. H. Bamford. 1989. Quantitation of the adsorption and penetration stages of bacteriophage phi6 infection. Virology 171:229-238.
38. Olsen, R. H., J. Siak, and R. H. Gray. 1974. Characteristics of PRD1, a plasmid-dependent broad host range DNA bacteriophage. J. Virol. 14:689-699.
39. Raab, R., G. Neal, J. Garrett, R. Grimaila, R. Fusselman, and R. Young. 1986. Mutational analysis of bacteriophage lambda lysis gene S. J. Bacteriol. 167:1035-1042.
40. Ramanculov, E., and R. Young. 2001. Functional analysis of the phage T4 holin in a lambda context. Mol. Gen. Genomics 265:345-353.
41. Ramanculov, E., and R. Young. 2001. Genetic analysis of the T4 holin: timing and topology. Gene 265:25-36.
42. Saier, M. H., Jr. 2000. Families of proteins forming transmembrane channels. J. Membr. Biol. 17S:165-180.
43. Sambrook, J., and D. W. Russell. 2001. Molecular cloning: a laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
44. Savilahti, H., and D. H. Bamford. 1987. The complete nucleotide sequence of the left very early region of Escherichia coli bacteriophage PRD1 coding for the terminal protein and DNA polymerase. Gene 57:121-130.
45. Smith, D. L., D. K. Struck, J. M. Scholtz, and R. Young. 1998. Purification and biochemical characterization of the lambda holin. J. Bacteriol. 180:2531-2540.
46. Sonnhammer, E. L. L., G. von Heijne, and A. Krogh. 1998. A hidden Markov model for predicting transmembrane helices in protein sequences, p. 175-182. In J. Glasgow, T. Littlejohn, F. Major, R. Lathrop, D. Sankoff, and C. Sensen (ed.), Proceedings of the Sixth International Conference on Intelligent Systems for Molecular Biology. AAA1 Press, Menlo Park, Calif.
47. Studier, F. W. 1991. Use of bacteriophage T7 lysozyme to improve an inducible T7 expression system. J. Mol. Biol. 219:37-44.
48. Studier, F. W., and B. A. Moffat. 1986. Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J. Mol. Biol. 189:113-130.
49. Vanden Boom, T., and J. E. J. Cronan. 1990. Nonsense mutants defining seven new genes of the lipid-containing bacteriophage PR4. Virology 177:11-12.
50. Vilen, H., J.-M. Aalto, A. Kassinen, L. Paulin, and H. Savilahti. 2003. A direct transposon insertion tool for modification and functional analysis of virus genomes. J. Virol. 77:123-134.
51. Wang, I. N., D. L. Smith, and R. Young. 2000. Holins: the protein clocks of bacteriophage infections. Annu. Rev. Microbiol. 54:799-825.
52. Winston, F., D. Botstein, and J. H. Miller. 1979. Characterization of amber and ochre suppressors in Salmonella typhimurium. J. Bacteriol. 137:433-439.
53. Young, R. 1992. Bacteriophage lysis: mechanism and regulation. Microbiol. Rev. 56:430-481.
54. Young, R., and U. Bläsi. 1995. Holins: form and function in bacteriophage lysis. FEMS Microbiol. Rev. 17:191-205.