A conserved spiral structure for highly diverged phage tail assembly chaperones

Journal of Molecular Biology

Volumn 425, Issue 14, 2013, Pages 2436-2449

  Pell, Lisa G ^a   Cumby, Nichole ^a   Clark, Teresa E ^b   Tuite, Ashleigh ^a   Battaile, Kevin P ^c   Edwards, Aled M ^a   Chirgadze, Nickolay Y ^b,d   Davidson, Alan R ^a   Maxwell, Karen L ^a  

^a UNIVERSITY OF TORONTO   (Canada)

^b UNIVERSITY HEALTH NETWORK   (Canada)

^c ARGONNE NATIONAL LABORATORY   (United States)

^d UNIVERSITY OF TORONTO   (Canada)

Author keywords

oligomerization mechanisms; phage morphogenesis; protein evolution; tail assembly; x ray crystal structure

Indexed keywords

CHAPERONE;

AMINO ACID SEQUENCE; ARTICLE; BACILLUS PHAGE; BACILLUS SUBTILIS; CRYSTAL STRUCTURE; DNA SEQUENCE; ESCHERICHIA COLI; GEOBACILLUS STEAROTHERMOPHILUS; LACTOCOCCUS; NONHUMAN; NUCLEOTIDE SEQUENCE; OLIGOMERIZATION; PRIORITY JOURNAL; PROTEIN ASSEMBLY; PROTEIN EXPRESSION; PROTEIN QUATERNARY STRUCTURE; PROTEIN STRUCTURE; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS;

BACILLUS SUBTILIS; CAUDOVIRALES; GEOBACILLUS STEAROTHERMOPHILUS; LACTOCOCCUS PHAGE P2;

EID: 84879551382     PISSN: 00222836     EISSN: 10898638     Source Type: Journal    
DOI: 10.1016/j.jmb.2013.03.035     Document Type: Article

References (31)

1. H.W. Ackermann 5500 Phages examined in the electron microscope Arch. Virol. 152 2007 227 243
2. M.E. Levin, R.W. Hendrix, and S.R. Casjens A programmed translational frameshift is required for the synthesis of a bacteriophage lambda tail assembly protein J. Mol. Biol. 234 1993 124 139
3. J. Xu, R.W. Hendrix, and R.L. Duda Conserved translational frameshift in dsDNA bacteriophage tail assembly genes Mol. Cell 16 2004 11 21
4. G.E. Christie, L.M. Temple, B.A. Bartlett, and T.S. Goodwin Programmed translational frameshift in the bacteriophage P2 FETUD tail gene operon J. Bacteriol. 184 2002 6522 6531
5. I. Katsura, and P.W. Kuhl Morphogenesis of the tail of bacteriophage lambda. III. Morphogenetic pathway. J. Mol. Biol. 91 1975 257 273
6. J.A. Lengyel, R.N. Goldstein, M. Marsh, and R. Calendar Structure of the bacteriophage P2 tail Virology 62 1974 161 174
7. M. Siponen, G. Sciara, M. Villion, S. Spinelli, J. Lichiere, and C. Cambillau Crystal structure of ORF12 from Lactococcus lactis phage p2 identifies a tape measure protein chaperone J. Bacteriol. 191 2009 728 734
8. J.F. Gibrat, T. Madej, and S.H. Bryant Surprising similarities in structure comparison Curr. Opin. Struct. Biol. 6 1996 377 385
9. Y. Ye, and A. Godzik Flexible structure alignment by chaining aligned fragment pairs allowing twists Bioinformatics 19 2003 ii246 ii255
10. S. Krogh, M. O'Reilly, N. Nolan, and K.M. Devine The phage†like element PBSX and part of the skin element, which are resident at different locations on the Bacillus subtilis chromosome, are highly homologous Microbiology 142 1996 2031 2040
11. C. Mauel, and D. Karamata Characterization of proteins induced by mitomycin C treatment of Bacillus subtilis J. Virol. 49 1984 806 812
12. Roe, B., Perry, B., Najar, F., and Moralesâ€Diaz, R. Bacillus (Geobacillus) stearothermophilus Genome Sequencing Project. NSF EPSCoR Program (Experimental Program to Stimulate Competitive Research). The University of Oklahoma, Department of Chemistry and Biochemistry, Norman, Oklahoma 73019.
13. S.F. Altschul, W. Gish, W. Miller, E.W. Myers, and D.J. Lipman Basic local alignment search tool J. Mol. Biol. 215 1990 403 410
14. S.F. Altschul, T.L. Madden, A.A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D.J. Lipman Gapped BLAST and PSIâ€BLAST: a new generation of protein database search programs Nucleic Acids Res. 25 1997 3389 3402
15. J. Soding, A. Biegert, and A.N. Lupas The HHpred server for protein homology detection and structure prediction Nucleic Acids Res. 33 2005 W244 W248
16. F.C. Bernstein, T.F. Koetzle, G.J. Williams, E.F. Meyer Jr., M.D. Brice, and J.R. Rodgers The Protein Data Bank. A computerâ€based archival file for macromolecular structures Eur. J. Biochem. 80 1977 319 324
17. R.D. Finn, J. Mistry, J. Tate, P. Coggill, A. Heger, and J.E. Pollington The Pfam protein families database Nucleic Acids Res. 38 2010 D211 D222
18. J. Xu A conserved frameshift strategy in dsDNA long tailed bacteriophages 2001 University of Pittsburgh
19. A.R. Davidson, L. Cardarelli, L.G. Pell, D.R. Radford, and K.L. Maxwell Long noncontractile tail machines of bacteriophages Adv. Exp. Med. Biol. 726 2012 115 142
20. S.R. Casjens, and R.W. Hendrix Locations and amounts of major structural proteins in bacteriophage lambda J. Mol. Biol. 88 1974 535 545
21. I. Katsura Structure and function of the major tail protein of bacteriophage lambda. Mutants having small major tail protein molecules in their virion J. Mol. Biol. 146 1981 493 512
22. T.L. Bailey, M. Boden, F.A. Buske, M. Frith, C.E. Grant, and L. Clementi MEME SUITE: tools for motif discovery and searching Nucleic Acids Res. 37 2009 W202 W208
23. Z. Otwinowski, and W. Minor Processing of Xâ€ray diffraction data collected in oscillation mode Methods Enzymol. 276 1997 307 326
24. C. Vonrhein, E. Blanc, P. Roversi, and G. Bricogne Automated structure solution with autoSHARP Methods Mol. Biol. 364 2007 215 230
25. N, C. C. P. The CCP4 suite: programs for protein crystallography Acta Crystallogr. Sect. D: Biol. Crystallogr. 50 1994 760 763
26. P. Emsley, and K. Cowtan Coot: modelâ€building tools for molecular graphics Acta Crystallogr., Sect. D: Biol. Crystallogr. 60 2004 2126 2132
27. L. Holm, and C. Sander Protein structure comparison by alignment of distance matrices J. Mol. Biol. 233 1993 123 138
28. E. Krissinel, and K. Henrick Secondaryâ€structure matching (SSM), a new tool for fast protein structure alignment in three dimensions Acta Crystallogr., Sect. D: Biol. Crystallogr. 60 2004 2256 2268
29. N. Cumby, A.M. Edwards, A.R. Davidson, and K.L. Maxwell The bacteriophage HK97 gp15 moron element encodes a novel superinfection exclusion protein J. Bacteriol. 194 2012 5012 5019
30. L. Cardarelli, R. Lam, A. Tuite, L.A. Baker, P.D. Sadowski, and D.R. Radford The crystal structure of bacteriophage HK97 gp6: defining a large family of head-tail connector proteins J. Mol. Biol. 395 2010 754 768
31. K.A. Gibbs, D.D. Isaac, J. Xu, R.W. Hendrix, T.J. Silhavy, and J.A. Theriot Complex spatial distribution and dynamics of an abundant Escherichia coli outer membrane protein, LamB Mol. Microbiol. 53 2004 1771 1783