Centromere binding specificity in assembly of the F plasmid partition complex

Nucleic Acids Research

Volumn 39, Issue 17, 2011, Pages 7477-7486

  Pillet, Flavien ^a,b,c   Sanchez, Aurore ^d   Lane, David ^d   Anton Leberre, Véronique ^a,b,c   Bouet, Jean Yves ^d  

^a INSA   (France)

^b UMR792 INGÉNIERIE DES SYSTÈMES BIOLOGIQUES ET DES PROCÉDÉS   (France)

^c CNRS   (France)

^d UPS   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; PROTEIN SOPB; PROTEIN SOPC; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ARTICLE; BINDING AFFINITY; BINDING SITE; CENTROMERE; CONTROLLED STUDY; ENZYME SPECIFICITY; ESCHERICHIA COLI; MUTAGENESIS; NONHUMAN; PARTITION COMPLEX; PLASMID; PRIORITY JOURNAL; PROTEIN ASSEMBLY; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN DATABASE; PROTEIN MOTIF; PROTEIN PROTEIN INTERACTION; SEQUENCE HOMOLOGY; SURFACE PLASMON RESONANCE;

BASE PAIRING; BASE SEQUENCE; BINDING SITES; CENTROMERE; CONSERVED SEQUENCE; DNA-BINDING PROTEINS; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; F FACTOR; INVERTED REPEAT SEQUENCES; MODELS, CHEMICAL; MOLECULAR SEQUENCE DATA; PROTEIN BINDING; REPETITIVE SEQUENCES, NUCLEIC ACID; SURFACE PLASMON RESONANCE;

ESCHERICHIA COLI;

EID: 80053192327     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr457     Document Type: Article

References (44)

1. Hayes, F. and Barilla, D. (2006) The bacterial segrosome: a dynamic nucleoprotein machine for DNA trafficking and segregation. Nat. Rev. Microbiol., 4, 133-143. (Pubitemid 43158156)
2. Cheeseman, I.M. and Desai, A. (2008) Molecular architecture of the kinetochore-microtubule interface. Nat. Rev., 9, 33-46.
3. Ogura, T. and Hiraga, S. (1983) Partition mechanism of F plasmid: two plasmid gene-encoded products and a cis-acting region are involved in partition. Cell, 32, 351-360.
4. Austin, S. and Abeles, A. (1983) Partition of unit-copy miniplasmids to daughter cells. I. P1 and F miniplasmids contain discrete, interchangeable sequences sufficient to promote equipartition. J. Mol. Biol., 169, 353-372.
5. Gerdes, K., Moller-Jensen, J. and Bugge Jensen, R. (2000) Plasmid and chromosome partitioning: surprises from phylogeny. Mol. Microbiol., 37, 455-466. (Pubitemid 30611826)
6. Schumacher, M.A., Glover, T.C., Brzoska, A.J., Jensen, S.O., Dunham, T.D., Skurray, R.A. and Firth, N. (2007) Segrosome structure revealed by a complex of ParR with centromere DNA. Nature, 450, 1268-1271.
7. Garner, E.C., Campbell, C.S., Weibel, D.B. and Mullins, R.D. (2007) Reconstitution of DNA segregation driven by assembly of a prokaryotic actin homolog. Science, 315, 1270-1274. (Pubitemid 46364263)
8. Barilla, D., Rosenberg, M.F., Nobbmann, U. and Hayes, F. (2005) Bacterial DNA segregation dynamics mediated by the polymerizing protein ParF. EMBO J., 24, 1453-1464. (Pubitemid 40593065)
9. Lim, G.E., Derman, A.I. and Pogliano, J. (2005) Bacterial DNA segregation by dynamic SopA polymers. Proc. Natl Acad. Sci. USA, 102, 17658-17663. (Pubitemid 41803553)
10. Bouet, J.Y., Ah-Seng, Y., Benmeradi, N. and Lane, D. (2007) Polymerization of SopA partition ATPase: regulation by DNA binding and SopB. Mol. Microbiol., 63, 468-481. (Pubitemid 46058933)
11. Pratto, F., Cicek, A., Weihofen, W.A., Lurz, R., Saenger, W. and Alonso, J.C. (2008) Streptococcus pyogenes pSM19035 requires dynamic assembly of ATP-bound ParA and ParB on parS DNA during plasmid segregation. Nucleic Acids Res., 36, 3676-3689. (Pubitemid 351917530)
12. Ptacin, J.L., Lee, S.F., Garner, E.C., Toro, E., Eckart, M., Comolli, L.R., Moerner, W.E. and Shapiro, L. (2010) A spindle-like apparatus guides bacterial chromosome segregation. Nat. Cell Biol., 12, 791-798.
13. Ebersbach, G. and Gerdes, K. (2005) Plasmid segregation mechanisms. Annu. Rev. Genet., 39, 453-479. (Pubitemid 43011123)
14. Funnell, B.E. and Gagnier, L. (1993) The P1 plasmid partition complex at parS: II. Analysis of ParB protein binding activity and specificity. J. Biol. Chem., 268, 3616-3624. (Pubitemid 23071005)
15. Bartosik, A.A. and Jagura-Burdzy, G. (2005) Bacterial chromosome segregation. Acta. Biochim. Pol., 52, 1-34. (Pubitemid 41132173)
16. Lin, D.C.H. and Grossman, A.D. (1998) Identification and characterization of a bacterial chromosome partitioning site. Cell, 92, 675-685. (Pubitemid 28141516)
17. Schumacher, M.A., Piro, K.M. and Xu, W. (2010) Insight into F plasmid DNA segregation revealed by structures of SopB and SopB-DNA complexes. Nucleic Acids Res., 38, 4514-4526.
18. Bouet, J.Y., Surtees, J.A. and Funnell, B.E. (2000) Stoichiometry of P1 plasmid partition complexes. J. Biol. Chem., 275, 8213-8219. (Pubitemid 30159738)
19. Schumacher, M.A., Mansoor, A. and Funnell, B.E. (2007) Structure of a four-way bridged ParB-DNA complex provides insight into P1 segrosome assembly. J. Biol. Chem., 282, 10456-10464. (Pubitemid 47093394)
20. Surtees, J.A. and Funnell, B.E. (2001) The DNA binding domains of P1 ParB and the architecture of the P1 plasmid partition complex. J. Biol. Chem., 276, 12385-12394.
21. Schumacher, M.A. and Funnell, B.E. (2005) Structures of ParB bound to DNA reveal mechanism of partition complex formation. Nature, 438, 516-519. (Pubitemid 41742025)
22. Lynch, A.S. and Wang, J.C. (1995) SopB protein-meditated silencing of genes linked to the sopC locus of Escherichia coli F plasmid. Proc. Natl Acad. Sci. USA, 92, 1896-1900.
23. Murray, H., Ferreira, H. and Errington, J. (2006) The bacterial chromosome segregation protein Spo0J spreads along DNA from parS nucleation sites. Mol. Microbiol., 61, 1352-1361. (Pubitemid 44215432)
24. Rodionov, O., Lobocka, M. and Yarmolinsky, M. (1999) Silencing of genes flanking the P1 plasmid centromere. Science, 283, 546-549.
25. Helsberg, M. and Eichenlaub, R. (1986) Twelve 43-base-pair repeats map in a cis-acting region essential for partition of plasmid mini-F. J. Bacteriol., 165, 1043-1045. (Pubitemid 16071447)
26. Ravin, N.V., Rech, J. and Lane, D. (2003) Mapping of functional domains in F plasmid partition proteins reveals a bipartite SopB-recognition domain in SopA. J. Mol. Biol., 329, 875-889. (Pubitemid 36683146)
27. Ah-Seng, Y., Lopez, F., Pasta, F., Lane, D. and Bouet, J.Y. (2009) Dual role of DNA in regulating ATP hydrolysis by the SopA partition protein. J. Biol. Chem., 284, 30067-30075.
28. Hanai, R., Liu, R.P., Benedetti, P., Caron, P.R., Lynch, A.S. and Wang, J.C. (1996) Molecular dissection of a protein SopB essential for Escherichia coli F plasmid partition. J. Biol. Chem., 271, 17469-17475. (Pubitemid 26244313)
29. Bouet, J.Y. and Lane, D. (2009) Molecular basis of the supercoil deficit induced by the mini-F plasmid partition complex. J. Biol. Chem., 284, 165-173.
30. Lynch, A.S. and Wang, J.C. (1994) Use of an inducible site-specific recombinase to probe the structure of protein-DNA complexes involved in F plasmid partition in Escherichia coli. J. Mol. Biol., 236, 679-684. (Pubitemid 24146312)
31. Watanabe, E., Wachi, M., Yamasaki, M. and Nagai, K. (1992) ATPase activity of SopA, a protein essential for active partitioning of F-plasmid. Mol. Gen. Genet., 234, 346-352.
32. Bouet, J.Y., Bouvier, M. and Lane, D. (2006) Concerted action of plasmid maintenance functions: partition complexes create a requirement for dimer resolution. Mol. Microbiol., 62, 1447-1459. (Pubitemid 44707205)
33. Pillet, F., Thilbault, C., Bellon, S., Maillart, E., Trévisiol, E., Vieu, C., Françis, J.M. and Anton-Leberre, V. (2010) Simple surface chemistry to immobilize DNA probes that significantly increases sensitivity and spots density of surface plasmon resonance imaging based microarray systems. Sensors and Actuators B, 147, 87-92.
34. Scarano, S., Scuffi, C., Mascini, M. and Minunni, M. (2010) Surface plasmon resonance imaging (SPRi)-based sensing: a new approach in signal sampling and management. Biosens. Bioelectron., 26, 1380-1385.
35. Maillart, E., Brengel-Pesce, K., Capela, D., Roget, A., Livache, T., Canva, M., Levy, Y. and Soussi, T. (2004) Versatile analysis of multiple macromolecular interactions by SPR imaging: application to p53 and DNA interaction. Oncogene, 23, 5543-5550. (Pubitemid 39044065)
36. Mori, H., Mori, Y., Ichinose, C., Niki, H., Ogura, T., Kato, A. and Hiraga, S. (1989) Purification and characterization of SopA and SopB proteins essential for F plasmid partitioning. J. Biol. Chem., 264, 15535-15541.
37. Bouet, J.Y., Rech, J., Egloff, S., Biek, D.P. and Lane, D. (2005) Probing plasmid partition with centromere-based incompatibility. Mol. Microbiol., 55, 511-525. (Pubitemid 40179384)
38. Bouet, J.Y., Nordstrom, K. and Lane, D. (2007) Plasmid partition and incompatibility-the focus shifts. Mol. Microbiol., 65, 1405-1414. (Pubitemid 47347831)
39. Biek, D.P. and Shi, J.P. (1994) A single 43-bp sopC repeat of plasmid mini-F is sufficient to allow assembly of a functional nucleoprotein partition complex. Proc. Natl Acad. Sci. USA, 91, 8027-8031. (Pubitemid 24253879)
40. Lane, D., Rothenbuehler, R., Merrillat, A. and Aiken, C. (1987) Analysis of the F plasmid centromere. Mol. Gen. Genet., 207, 406-412. (Pubitemid 17086387)
41. Biek, D.P. and Strings, J. (1995) Partition functions of mini-F affect plasmid DNA topology in Escherichia coli. J. Mol. Biol., 246, 388-400.
42. Breier, A.M. and Grossman, A.D. (2007) Whole-genome analysis of the chromosome partitioning and sporulation protein Spo0J (ParB) reveals spreading and origin-distal sites on the Bacillus subtilis chromosome. Mol. Microbiol., 64, 703-718. (Pubitemid 46653213)
43. Dickerson, R.E. and Drew, H.R. (1981) Kinematic model for B-DNA. Proc. Natl Acad. Sci. USA, 78, 7318-7322. (Pubitemid 12186131)
44. Zhurkin, V.B. (1983) Specific alignment of nucleosomes on DNA correlates with periodic distribution of purine-pyrimidine and pyrimidine-purine dimers. FEBS Lett., 158, 293-297.