Domain architecture of the bacteriophage φ29 connector protein

Journal of Molecular Biology

Volumn 288, Issue 5, 1999, Pages 899-909

  Valle, Mikel ^b   Kremer, Leonor ^a   Martínez A , Carlos ^a   Roncal, Fernando ^a   Valpuesta, José M ^b   Albar, Juan P ^a   Carrascosa, José L ^b  

^a CENTRO NACIONAL DE BIOTECNOLOGÍA   (Spain)

^b NONE

Author keywords

Antibody labeling; Connector protein; Electron microscopy; Image processing; Phage 29

Indexed keywords

MONOCLONAL ANTIBODY; VIRUS PROTEIN;

AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; ARTICLE; BACTERIOPHAGE; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; DNA BINDING; IMAGING; IMMUNOELECTRON MICROSCOPY; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FOLDING; PROTEIN STRUCTURE; RNA BINDING; VIRUS MORPHOGENESIS;

BACTERIOPHAGE PHI29; UNIDENTIFIED BACTERIOPHAGE;

EID: 0033591438     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1999.2731     Document Type: Article

References (43)

1. Aebi U., ten Heggeler B., Onorato L., Kistler J., Showe M. K. A new method for localizing proteins in periodic structures: Fab fragment labeling combined with image processing of electron micrographs. Proc. Natl Acad. Sci. USA. 74:1977;5514-5518.
2. Black L. W. DNA packaging in dsDNA bacteriophages. Calendar R. The Bacteriophages. 1988;321-373 Plenum, New York.
3. Booy F. P., Roden R. B. S., Greenstone H. L., Schiller J. T., Trus B. L. Two antibodies that neutralize papillomavirus by different mechanisms show distinct binding patterns at 13 A resolution. J. Mol. Biol. 281:1998;95-106.
4. Brinkley M. A. A survey of methods for preparing protein conjugates with dyes, haptens and crosslinking agents. Bioconjugate Chem. 3:1992;2-13.
5. Carazo J. M., Santisteban A., Carrascosa J. L. Three-dimensional reconstruction of bacteriophage Φ29 neck particles at 2.2 nm resolution. J. Mol. Biol. 183:1985;79-88.
6. Carazo J. M., Donate L. E., Herranz L., Secilla J. P., Carrascosa J. L. Three-dimensional reconstruction of the bacteriophage Φ29 at 1.8 nm resolution. J. Mol. Biol. 192:1986;853-867.
7. Carrascosa J. L., Kellenberger E. Bacteriophages. van Regenmortel M. H. V., Neurath A. R. Immunochemistry of Viruses II. The Basis for Serodiagnosis and Vaccines. 1990;Elsevier Science Publishers.
8. Carrascosa J. L., Carazo J. M., García N. Structural localization of the head to tail connecting region of the bacteriophage Φ29. Virology. 124:1983;133-143.
9. Carrascosa J. L., Carazo J. M., Herranz L., Donate L. E., Secilla J. P. Study of two related configurations of the neck of bacteriophage ø29. Computers Math. Applic. 20:1990;57-69.
10. Conway J. F., Cheng N., Zlotnick A., Stahl S. J., Wingfield P. T., Belnap D. M., Kanngiesser U., Noah M., Steven A. C. Hepatitis B virus capsid: localization of the putative Immunodominant loop (residues 78 to 83) on the capsid surface, and implications for the distinction between c and e-antigens. J. Mol. Biol. 279:1998;1111-1121.
11. Donate L. E., Herranz L., Secilla J. P., Carazo J. M., Fujisawa H., Carrascosa J. L. Bacteriophage T3 connector: three-dimensional structure and comparison with other viral head-tail connecting regions. J. Mol. Biol. 201:1988;91-100.
12. Donate L. E., Valpuesta J. M., Rocher A., Méndez E., Rojo F., Salas M., Carrascosa J. L. Role of the amino-terminal domain of bacteriophage Φ29 connector in DNA binding and packaging. J. Biol. Chem. 267:1992;10919-10924.
13. Donate L. E., Valpuesta J. M., Mier C., Rojo F., Carrascosa J. L. Characterization of an RNA-binding domain in the bacteriophage Φ29 connector. J. Biol. Chem. 268:1993;20198-20204.
14. Driedonks R. A., Caldentey J. Gene 20 product of bacteriophage T4. II. Its structural organization in prehead and bacteriophage. J. Mol. Biol. 166:1983;341-360.
15. Frank R., Overwin H. Spot synthesis: epitope analysis with arrays of synthetic peptides prepared on cellulose membranes. Methods Mol. Biol. 66:1996;149-169.
16. Galfre G., Howe S. C., Milstein C., Butcher G. W., Howard J. C. Antibodies to major histocompatibility antigens produced by hybrid cell lines. Nature. 266:1977;550-552.
17. Gausepohl H., Boulin C., Kraft M., Frank R. W. Automated multiple peptide synthesis. Peptide Res. 5:1992;315-320.
18. Grimes S., Anderson D. RNA dependence of the bacteriophage Φ29 DNA packaging ATPase. J. Mol. Biol. 215:1990;559-566.
19. Guo P., Erickson S., Anderson D. A small RNA is required for in vitro packaging of bacteriophage Φ29 DNA. Science. 236:1987;690-694.
20. Guo P., Zhang C., Chen C., Garver K., Trottier M. Inter-RNA interaction of phage Φ29 pRNA to form a hexameric complex for viral DNA transportation. Mol. Cell. 2:1998;149-155.
21. Harlow E., Lane D. Editors of Antibodies: A Laboratory Manual. 1998;Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
22. Hendrix R. Symmetry mismatch and DNA packaging in large DNA bacteriophages. Proc. Natl Acad. Sci. USA. 75:1978;4779-4783.
23. Hendrix R. W. Bacteriophage DNA packaging: RNA gears in a DNA transport machine. Cell. 94:1998;147-150.
24. Herranz L., Salas M., Carrascosa J. L. Interaction of the bacteriophage connector protein with the viral DNA. Virology. 155:1986;289-292.
25. Herranz L., Bordás J., Towns-Andrews E., Mendez E., Usobiaga P., Carrascosa J. L. Conformational changes in bacteriophage Φ29 connector prevents DNA-binding activity. J. Mol. Biol. 213:1990;263-273.
26. Hewat E. A., Marlovits T. C., Blaas D. Structure of a neutralizing antibody bound to human rhinovirus 2. J. Virol. 72:1998;4396-4402.
27. Kenan D. J., Query C. C., Keene J. D. RNA recognition: towards identifying determinants of specificity. Trends Biochem. Sci. 16:1991;214-220.
28. Kohonen T. The self organizing map. Proc. IEEE. 78:1990;1464-1480.
29. Marabini R., Masegosa I. M., San Martín C., Marco S., Fernández J. J., de la Fraga L. G., Vaquerizo C., Carazo J. M. X-mipp: an image processing package for electron microscopy. J. Struct. Biol. 116:1996;237-240.
30. Marco S., Chagoyen M., de la Fraga L. G., Carazo J. M., Carrascosa J. L. A variant to the random approximation of the reference-free alignment algorithm. Ultramicroscopy. 66:1996;5-10.
31. Müller D. J., Engel A., Carrascosa J. L., Vélez M. The bacterioplage φ29 head-tail connector imaged at high resolution with the atomic force microscope in buffer solution. EMBO J. 16:1997;2547-2553.
32. Penzeck P., Radermacher M., Frank J. Three-dimensional reconstructions of single particles embedded in ice. Ultramycroscopy. 40:1992;33-53.
33. Smith T. J., Olson N. H., Cheng R. H., Liu H., Chase E., Lee W. M., Leippe D. M., Mosser A. G., Rueckert R. R., Backer T. S. Structure of a human rhinovirus complexed with Fab fragments from a neutralizing antibody. J. Virol. 67:1993;1148-1158.
34. Tao Y., Olson N. H., Xu W., Anderson D. L., Rossman M. G., Baker T. S. Morphogenesis of a tailed bacterial virus visualized by cryo-electron microscopy. Cell. 95:1998;431-437.
35. Turnquist S., Simon M., Egelman E., Anderson D. A. Supercoiled DNA wraps around the bacteriophage Φ29 head-tail connector. Proc. Natl Acad. Sci. USA. 89:1992;10479-10483.
36. Valle M., Valpuesta J. M., Carrascosa J. L., Tamayo J., Garcia R. The interaction of DNA with bacteriophage Φ29 connector: a study by AFM and TEM. J. Struct. Biol. 116:1996;390-398.
37. Valle M., Mu ñ M., Kremer L., Valpuesta J. M., Martínez-A. C., Carrascosa J. L., Albar J. P. A new approach for the correlation of protein sequence domains with their spatial structural distribution. Protein Sci. 8:1999;883-889.
38. Valpuesta J. M., Carrascosa J. L. Structure of viral connectors and their function in bacteriophage assembly and DNA packaging. Quart. Rev. Biophys. 27:1994;107-155.
39. Valpuesta J. M., Fujisawa H., Marco S., Carazo J. M., Carrascosa J. L. Three-dimensional structure of T3 connector purified from overexpressing bacteria. J. Mol. Biol. 224:1992a;103-112.
40. Valpuesta J. M., Serrano M., Donate L. E., Herranz L., Carrascosa J. L. DNA conformational change induced by the bacteriophage Φ29 connector. Nucl. Acids Res. 20:1992b;5549-5554.
41. Valpuesta J. M., Donate L. E., Mier C., Herranz L., Carrascosa J. L. RNA-mediated specificity of DNA packaging into hybrid proheads. EMBO J. 12:1993;4453-4459.
42. Valpuesta J. M., Fernández J. J., Carazo J. M., Carrascosa J. L. The three-dimensional structure of a DNA translocating machine at 10 A resolution. Structure. 17:1999;289-296.
43. Zhang F., Lemieux S., Wu X., St-Arnaud D., McMurray C. T., Major F., Anderson D. Function of hexameric RNA in packaging of bacteriophage Φ29 DNA in vitro. Mol. Cell. 2:1998;141-147.