Module swaps between related translocator proteins pIV(f1), pIV(IKe) and PulD: Identification of a specificity domain

Journal of Molecular Biology

Volumn 266, Issue 5, 1997, Pages 978-992

  Daefler, Simon ^a   Russel, Marjorie ^a   Model, Peter ^a  

^a ROCKEFELLER UNIVERSITY   (United States)

Author keywords

Extra cellular secretion; Filamentous phage assembly; Protein export; Pullulanase secretion

Indexed keywords

AMINO ACID; CARRIER PROTEIN;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARTICLE; BACTERIOPHAGE; GRAM NEGATIVE BACTERIUM; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN STRUCTURE; PROTEIN TRANSPORT;

EID: 0031567136     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1996.0866     Document Type: Article

References (62)

1. Bender, S., Lehman, J. & Wallenfels, K. (1959). Pullulan, ein extracelullaeres Glucan von Pullularia pullulans. Biochim. Biophys. Acta, 36, 309-316.
2. Boeke, J. D., Russel, M. & Model, P. (1980). Processing of filamentous phage pre-coat protein. Effect of sequence variations near the signal peptidase cleavage site. J. Mol. Biol. 144, 103-116.
3. Bradley, D. E. (1980). Morphological and serological relationships of conjugative pili. Plasmid, 4, 155-169.
4. Brissette, J. L. & Russel, M. (1990). Secretion and membrane integration of a filamentous phage-encoded morphogenetic protein. J. Mol. Biol. 211, 565-580.
5. Brissette, J. L., Russel, M., Weiner, L. & Model, P. (1990). Phage shock protein, a stress protein of Escherichia coli. Proc. Natl Acad. Sci. USA, 87, 862-866.
6. Bross, P., Bussmann, K., Keppner, W. & Rasched, I. (1988). Functional analysis of the adsorption protein of two filamentous phages with different host specificities. J. Gen. Microbiol. 134, 461-471.
7. Carlson, J. H. & Silhavy, T. J. (1993). Signal sequence processing is required for the assembly of LamB trimers in the outer membrane of Escherichia coli. J. Bacteriol. 175, 3327-3334.
8. Chang, A. C. & Cohen, S. N. (1978). Construction and characterization of amplifiable multicopy DNA cloning vehicles derived from the P15A cryptic miniplasmid. J. Bacteriol, 134, 1141-1156.
9. Chou, P. Y. & Fasman, G. D. (1978). Empirical predictions of protein conformation. Annu. Rev. Biochem. 47, 251-276.
10. Claros, M. G. & von Heijne, G. (1994). TopPred II: an improved software for membrane protein structure predictions. CABIOS, 10, 685-686.
11. Cowan, S. W., Schirmer, T., Rummel, G., Steiert, M., Ghosh, R., Pauptit, R. A., Jansonius, J. N. & Rosenbusch, J. P. (1992). Crystal structures explain functional properties of two E. coli porins. Nature, 358, 727-733.
12. d'Enfert, C. & Pugsley, A. P. (1989). Klebsiella pneumoniae pulS gene encodes an outer membrane lipoprotein required for pullulanase secretion. J. Bacteriol. 171, 3673-3679.
13. d'Enfert, C., Reyss, I., Wandersman, C. & Pugsley, A. P. (1989). Protein secretion by Gram-negative bacteria. Characterization of two membrane proteins required for pullulanase secretion by Escherichia coli K-12. J. Biol. Chem. 264, 17462-17468.
14. Dunn, B., Stearns, T. & Botstein, D. (1993). Specificity domains distinguish the Ras-related GTPases Ypt1 and Sec4. Nature, 362, 563-565.
15. Eisele, J. L., Bertrand, S., Galzi, J. L., Devillers-Thiery, A., Changeux, J. P. & Bertrand, D. (1993). Chimaeric nicotinic-serotonergic receptor combines distinct ligand binding and channel specificities. Nature, 366, 479-483.
16. Genin, S. & Boucher, C. A. (1994). A superfamily of proteins involved in different secretion pathways in Gram-negative bacteria: modular structure and specificity of the N-terminal domain. Mol. Gen. Genet. 243, 112-118.
17. Hardie, K. R., Lory, S. & Pugsley, A. P. (1996). Insertion of an outer membrane protein in Escherichia coli requires a chaperone-like protein. EMBO J. 15, 978-988.
18. Heitman, J., Treisman, J., Davis, N. G. & Russel, M. (1989). Cassettes of the f1 intergenic region. Nucl. Acids Res. 17, 4413.
19. Hill, D. F. & Petersen, G. B. (1982). Nucleotide sequence of bacteriophage f1 DNA. J. Virol. 44, 32-46.
20. Hope, G. C. & Dean, A. C. (1974). Pullulanase synthesis in Klebsiella (aerobacter) aerogenes strains growing in continuous culture. Biochem. J. 144, 403-411.
21. Horabin, J. I. & Webster, R. E. (1986). Morphogenesis of f1 filamentous bacteriophage. Increased expression of gene I inhibits bacterial growth. J. Mol. Biol. 188, 403-413.
22. Hucho, F., Gorne-Tschelnokow, U. & Strecker, A. (1994). Beta-structure in the membrane-spanning part of the nicotinic acetylcholine receptor (or how helical are transmembrane helices?). Trends Biochem. Sci. 19, 383-387.
23. Jahnig, F. (1990). Structure predictions of membrane proteins are not that bad. Trends Biochem. Sci. 15, 93-95.
24. Jones, D. T., Taylor, W. R. & Thornton, J. M. (1992). A new approach to protein fold recognition. Nature, 358, 86-89.
25. Kazmierczak, B. I., Mielke, D. L., Russel, M. & Model, P. (1994). pIV, a filamentous phage protein that mediates phage export across the bacterial cell envelope, forms a multimer. J. Mol, Biol. 238, 187-198.
26. Klauser, T., Pohlner, J. & Meyer, T. F. (1993). The secretion pathway of IgA protease-type proteins in Gram-negative bacteria. Bioessays, 15, 799-805.
27. Kleerebezem, M. & Tommassen, J. (1993). Expression of the pspA gene stimulates efficient protein export in Escherichia coli. Mol. Microbiol. 7, 947-956.
28. Laemmli, U. K. (1970). Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature, 227, 680-685.
29. Lessl, M., Balzer, D., Lurz, R., Waters, V. L., Guiney, D. G. & Lanka, E. (1992). Dissection of IncP conjugative plasmid transfer: definition of the transfer region Tra2 by mobilization of the Tra1 region in trans. J. Bacteriol. 174, 2493-2500.
30. Lindeberg, M., Salmond, G. P. C. & Collmer, A. (1996). Complementation of deletion mutations in a cloned functional cluster of Erwinia chrysanthemi out genes with Erwinia carotovora out homologues revels OutC and OutD as candidate gatekeepers of species-specific secretion of proteins via the type II pathway. Mol. Microbiol. 20, 175-190.
31. Mizuno, T., Kasai, H. & Mizushima, S. (1987). Construction of a series of ompC-ompF chimeric genes by in vivo homologous recombination in Escherichia coli and characterization of their translational products. Mol. Gen. Genet. 207, 217-223.
32. Model, P. & Russel, M. (1988). Filamentous bacteriophage. In The Bacteriophages (Calendar, R., ed.), vol. 2, pp. 375-456. Plenum Publishing Corporation, New York.
33. Peeters, B. P., Peters, R. M., Schoenmakers, J. G. & Konings, R. N. (1985). Nucleotide sequence and genetic organization of the genome of the N-specific filamentous bacteriophage IKe. Comparison with the genome of the F-specific filamentous phages M13, fd and f1. J. Mol. Biol. 181, 27-39.
34. Peeters, B. P., Schoenmakers, J. G. & Konings, R. N. (1986). The gene II proteins of the filamentous phages IKe and Ff (M13, fd and f1) are not functionally interchangeable during viral strand replication. Nucl. Acids Res. 14, 5067-5080.
35. Persson, B. & Argos, P. (1994). Prediction of transmembrane segments in proteins utilising multiple sequence alignments. J. Mol. Biol. 237, 182-192.
36. Pugsley, A. P. (1993). The complete general secretory pathway in Gram-negative bacteria. Microbiol. Rev. 57, 50-108.
37. Pugsley, A. P., d'Enfert, C., Reyss, I. & Kornacker, M. G. (1990). Genetics of extracellular protein secretion by Gram-negative bacteria. Annu. Rev. Genet. 24, 67-90.
38. Rinderknecht, H., Wilding, P. & Haverback, B. J. (1967). A new method for the determination of alpha-amylase. Experientia, 23, 805.
39. Robyt, J. F. & Whelan, W. J. (1972). Reducing value methods for maltodextrins. I. Chain-length dependence of alkaline 3,5-dinitrosalicylate and chain-length independence of alkaline copper. Anal. Biochem. 45, 510-516.
40. Russel, M. (1992). Interchangeability of related proteins and autonomy of function. The morphogenetic proteins of filamentous phage f1 and IKe cannot replace one another. J. Mol. Biol. 227, 453-462.
41. Russel, M. (1993). Protein-protein interactions during filamentous phage assembly. J. Mol. Biol. 231, 689-697.
42. Russel, M. (1994a). Mutants at conserved positions in gene IV, a gene required for assembly and secretion of filamentous phages. Mol. Microbiol. 14, 357-369.
43. Russel, M. (1994b). Phage assembly: a paradigm for bacterial virulence factor export? Science, 265, 612-614.
44. Russel, M. (1995). Moving through the membrane with filamentous phages. Trends Microbiol. 3, 223-228.
45. Russel, M. & Kazmierczak, B. (1993). Analysis of the structure and subcellular location of filamentous phage pIV. J. Bacteriol. 175, 3998-4007.
46. Saiki, R. K., Scharf, S., Faloona, F., Mullis, K. B., Horn, G. T., Erlich, H. A. & Arnheim, N. (1985). Enzymatic amplification of beta-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anemia. Science, 230, 1350-1354.
47. Šali, A. & Blundell, T. L. (1993). Comparative protein modelling by satisfaction of spatial restraints. J. Mol. Biol. 234, 779-815.
48. Salmond, G. P. & Reeves, P. J. (1993). Membrane traffic wardens and proteins secretion in Gram-negative bacteria. Trends Biochem. Sci. 18, 7-12.
49. Sambrook, J., Fritsch, E. & Maniatis, T. (1989). Molecular Cloning: A Laboratory Manual, 2nd edit. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
50. Sanger, F., Nicklen, S. & Coulson, A. R. (1977). DNA sequencing with chain-terminating inhibitors. Proc. Natl Acad. Sci. USA, 74, 5463-5467.
51. Schatz, P. J. & Beckwith, J. (1990). Genetic analysis of protein export in Escherichia coli. Annu. Rev. Genet. 24, 215-248.
52. Schirmer, T., Keller, T. A., Wang, Y. F. & Rosenbusch, J. P. (1995). Structural basis for sugar translocation through maltoporin channels at 3.1 Å resolution. Science, 267, 512-514.
53. Schuler, G. D., Altschul, S. F. & Lipman, D. J. (1991). A workbench for multiple alignment construction and analysis. Proteins: Struct. Funct. Genet. 9, 180-190.
54. Takeshita, S., Sato, M., Toba, M., Masahashi, W. & Hashimoto-Gotoh, T. (1987). High-copy-number and low-copy-number plasmid vectors for lacZ alpha-complementation and chloramphenicol-or kanamycin-resistance selection. Gene, 61, 63-74.
55. Tomb, J. F., el-Hajj, H. & Smith, H. O. (1991). Nucleotide sequence of a cluster of genes involved in the transformation of Haemophilus influenzae Rd. Gene, 104, 1-10.
56. Tommassen, J., van der Ley, P., van Zeijl, M. & Agterberg, M. (1985). Localization of functional domains in E. coli K-12 outer membrane porins. EMBO J. 4, 1583-1587.
57. Towbin, H., Staehelin, T. & Gordon, J. (1979). Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: procedure and some applications. Proc. Natl Acad. Sci. USA, 76, 4350-4354.
58. Unwin, N. (1996). Projection structure of the nicotinic acetylcholine receptor. Distinct conformations of the alpha subunits. J. Mol. Biol. 257, 586-596.
59. van der Ley, P., Burm, P., Agterberg, M., van Meersbergen, J. & Tommassen, J. (1987). Analysis of structure-function relationships in Escherichia coli K12 outer membrane porins with the aid of ompC-phoE and phoE-ompC hybrid genes. Mol. Gen. Genet. 209, 585-591.
60. von Heijne, G. (1992). Membrane protein structure prediction. Hydrophobicity analysis and the positive-inside rule. J. Mol. Biol. 225, 487-494.
61. Wandersman, C. (1992). Secretion across the bacterial outer membrane. Trends Genet. 8, 317-322.
62. Wickner, W., Driessen, A. J. & Hartl, F. U. (1991). The enzymology of protein translocation across the Escherichia coli plasma membrane. Annu. Rev. Biochem. 60, 101-124.