Covalent binding of the natural antimicrobial peptide indolicidin to DNA abasic sites

Nucleic Acids Research

Volumn 34, Issue 18, 2006, Pages 5157-5165

  Marchand, Christophe ^a   Krajewski, Krzysztof ^b   Lee, Hsiu Fang ^c   Antony, Smitha ^a   Johnson, Allison A ^a   Amin, Ronak ^a   Roller, Peter ^b   Kvaratskhelia, Mamuka ^c   Pommier, Yves ^a  

^a NATIONAL CANCER INSTITUTE   (United States)

^b NATIONAL CANCER INSTITUTE   (United States)

^c THE OHIO STATE UNIVERSITY WEXNER MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; DNA; DNA TOPOISOMERASE; DOUBLE STRANDED DNA; INDOLICIDIN; INTEGRASE; LYSINE; NITROGEN DIOXIDE; POLYPEPTIDE ANTIBIOTIC AGENT; RIN 109; RIN 110; RIN 112; RIN 113; RIN 114; RIN 115; RIN 25; RIN 66; RIN 69; RIN 85; RIN 86; SINGLE STRANDED DNA; UNCLASSIFIED DRUG; VIRUS DNA;

AMINO TERMINAL SEQUENCE; ARTICLE; BINDING SITE; CARBOXY TERMINAL SEQUENCE; CONCENTRATION RESPONSE; CONTROLLED STUDY; COVALENT BOND; CROSS LINKING; DNA BINDING; DNA FOOTPRINTING; DRUG POTENCY; DRUG STRUCTURE; ENZYME INHIBITION; ENZYME MECHANISM; MAMMAL CELL; MASS SPECTROMETRY; NONHUMAN; PRIORITY JOURNAL; PROTEIN MOTIF;

ANTIMICROBIAL CATIONIC PEPTIDES; BINDING SITES; DNA; DNA TOPOISOMERASES, TYPE I, EUKARYOTIC; DNA, SINGLE-STRANDED; HIV INTEGRASE; LYSINE; PROTEIN BINDING; SCHIFF BASES; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION;

HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 33750971755     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkl667     Document Type: Article

References (34)

1. de Soultrait,V.R., Desjobert,C. and Tarrago-Litvak,L. (2003) Peptides as new inhibitors of HIV-1 reverse transcriptase and integrase. Curr. Med. Chem., 10, 1765-1778.
2. Krajewski,K., Marchand,C., Long,Y.Q., Pommier,Y. and Roller,P.P. (2004) Synthesis and HIV-1 integrase inhibitory activity of dimeric and tetrameric analogs of indolicidin. Bioorg. Med. Chem. Lett., 14, 5595-5598.
3. Selsted,M.E., Novotny,M.J., Morris,W.L., Tang,Y.Q., Smith,W. and Cullor,J.S. (1992) Indolicidin, a novel bactericidal tridecapeptide amide from neutrophils. J. Biol. Chem., 267, 4292-4295.
4. Zanetti,M., Gennaro,R. and Romeo,D. (1995) Cathelicidins: A novel protein family with a common proregion and a variable C-terminal antimicrobial domain. FEBS Lett., 374, 1-5.
5. Brogden,K.A. (2005) Antimicrobial peptides: Pore formers or metabolic inhibitors in bacteria? Nature Rev. Microbiol., 3, 238-250.
6. Tomasinsig,L. and Zanetti,M. (2005) The cathelicidins - structure, function and evolution. Curr. Protein Pept. Sci., 6, 23-34.
7. Finlay,B.B. and Hancock,R.E. (2004) Can innate immunity be enhanced to treat microbial infections? Nat. Rev. Microbiol., 2, 497-504.
8. Ahmad,I., Perkins,W.R., Lupan,D.M., Selsted,M.E. and Janoff,A.S. (1995) Liposomal entrapment of the neutrophil-derived peptide indolicidin endows it with in vivo antifungal activity. Biochim. Biophys. Acta, 1237, 109-114.
9. Aley,S.B., Zimmerman,M., Hetsko,M., Selsted,M.E. and Gillin,F.D. (1994) Killing of Giardia lamblia by cryptdins and cationic neutrophil peptides. Infect. Immun., 62, 5397-5403.
10. Chong-Cerrillo,C., Selsted,M.E., Peterson,E.M. and De La Maza,L.M. (2003) Susceptibility of human and murine Chlamydia trachomatis serovars to granulocyte and epithelium-derived antimicrobial peptides. J. Pept. Res., 61, 237-242.
11. Albiol Matanic,V.C. and Castilla,V. (2004) Antiviral activity of antimicrobial cationic peptides against Junin virus and herpes simplex virus. Int. J. Antimicrob. Agents, 23, 382-389.
12. Robinson,W.E., Jr, McDougall,B., Tran,D. and Selsted,M.E. (1998) Anti-HIV-1 activity of indolicidin, an antimicrobial peptide from neutrophils. J. Leukoc. Biol., 63, 94-100.
13. Boehr,D.D., Draker,K.A., Koteva,K., Bains,M., Hancock,R.E. and Wright,G.D. (2003) Broad-spectrum peptide inhibitors of aminoglycoside antibiotic resistance enzymes. Chem. Biol., 10, 189-196.
14. Hsu,C.H., Chen,C., Jou,M.L., Lee,A.Y., Lin,Y.C., Yu,Y.P., Huang,W.T. and Wu,S.H. (2005) Structural and DNA-binding studies on the bovine antimicrobial peptide, indolicidin: Evidence for multiple conformations involved in binding to membranes and DNA. Nucleic Acids Res., 33, 4053-4064.
15. Wu,M., Maier,E., Benz,R. and Hancock,R.E. (1999) Mechanism of interaction of different classes of cationic antimicrobial peptides with planar bilayers and with the cytoplasmic membrane of Escherichia coli. Biochemistry, 38, 7235-7242.
16. Falla,T.J., Karunaratne,D.N. and Hancock,R.E. (1996) Mode of action of the antimicrobial peptide indolicidin. J. Biol. Chem., 271, 19298-19303.
17. Lee,D.G., Kim,H.K., Kim,S.A., Park,Y., Park,S.C., Jang,S.H. and Hahm,K.S. (2003) Fungicidal effect of indolicidin and its interaction with phospholipid membranes. Biochem. Biophys. Res. Commun., 305, 305-310.
18. Subbalakshmi,C. and Sitaram,N. (1998) Mechanism of antimicrobial action of indolicidin. FEMS Microbiol. Lett., 160, 91-96.
19. Marchand,C., Neamati,N. and Pommier,Y. (2001) In vitro human immunodeficiency virus type 1 integrase assays. Methods Enzymol., 340, 624-633.
20. Marchand,C., Johnson,A.A., Karki,R.G., Pais,G.C., Zhang,X., Cowansage,K., Patel,T.A., Nicklaus,M.C., Burke,T.R., Jr and Pommier,Y. (2003) Metal-dependent inhibition of HIV-1 integrase by beta-diketo acids and resistance of the soluble double-mutant (F185K/C280S). Mol. Pharmacol., 64, 600-609.
21. Mazumder,A., Neamati,N., Pilon,A.A., Sunder,S. and Pommier,Y. (1996) Chemical trapping of ternary complexes of human immunodeficiency virus type 1 integrase, divalent metal, and DNA substrates containing an abasic site. Implications for the role of lysine 136 in DNA binding. J. Biol. Chem., 271, 27330-27338.
22. Pommier,Y., Covey,J.M., Kerrigan,D., Markovits,J. and Pham,R. (1987) DNA unwinding and inhibition of mouse leukemia L1210 DNA topoisomerase I by intercalators. Nucleic Acids Res., 15, 6713-6731.
23. Kvaratskhelia,M., Miller,J.T., Budihas,S.R., Pannell,L.K. and Le Grice,S.F. (2002) Identification of specific HIV-1 reverse transcriptase contacts to the viral RNA:tRNA complex by mass spectrometry and a primary amine selective reagent. Proc. Natl Acad. Sci. USA, 99, 15988-15993.
24. Shell,S.M., Hess,S., Kvaratskhelia,M. and Zou,Y. (2005) Mass spectrometric identification of lysines involved in the interaction of human replication protein a with single-stranded DNA. Biochemistry, 44, 971-978.
25. Liu,Y., Kvaratskhelia,M., Hess,S., Qu,Y. and Zou,Y. (2005) Modulation of replication protein A function by its hyperphosphorylation-induced conformational change involving DNA binding domain B. J. Biol. Chem., 280, 32775-32783.
26. Shkriabai,N., Patil,S.S., Hess,S., Budihas,S.R., Craigie,R., Burke,T.R., Jr, Le Grice,S.F. and Kvaratskhelia,M. (2004) Identification of an inhibitor-binding site to HIV-1 integrase with affinity acetylation and mass spectrometry. Proc. Natl Acad. Sci. USA, 101, 6894-6899.
27. Leppard,J.B. and Champoux,J.J. (2005) Human DNA topoisomerase I: relaxation, roles, and damage control. Chromosoma, 114, 75-85.
28. Pommier,Y., Pourquier,P., Fan,Y. and Strumberg,D. (1998) Mechanism of action of eukaryotic DNA topoisomerase I and drugs targeted to the enzyme. Biochim. Biophys. Acta, 1400, 83-105.
29. Lukasik,S.M., Cierpicki,T., Borloz,M., Grembecka,J., Everett,A. and Bushweller,J.H. (2006) High resolution structure of the HDGF PWWP domain: A potential DNA binding domain. Protein Sci., 15, 314-323.
30. Qiu,C., Sawada,K., Zhang,X. and Cheng,X. (2002) The PWWP domain of mammalian DNA methyltransferase Dnmt3b defines a new family of DNA-binding folds. Nature Struct. Biol., 9, 217-224.
31. Singh,D.P., Kubo,E., Takamura,Y., Shinohara,T., Kumar,A., Chylack,L.T., Jr and Fatma,N. (2006) DNA binding domains and nuclear localization signal of LEDGF: Contribution of two helix-turn-helix (HTH)-like domains and a stretch of 58 amino acids of the N-terminal to the trans-activation potential of LEDGF. J. Mol. Biol., 355, 379-394.
32. Cherepanov,P., Maertens,G., Proost,P., Devreese,B., Van Beeumen,J., Engelborghs,Y., De Clercq,E. and Debyser,Z. (2003) HIV-1 integrase forms stable tetramers and associates with LEDGF/p75 protein in human cells. J. Biol. Chem., 278, 372-381.
33. Marchand,C., Johnson,A.A., Semenova,E. and Pommier,Y. (2006) Mechanisms and inhibiton of HIV integration. Drug Discovery Today: Disease Mechanisms, 3, 253-260.
34. Boiteux,S. and Guillet,M. (2004) Abasic sites in DNA: Repair and biological consequences in Saccharomyces cerevisiae. DNA Repair (Amst), 3, 1-12.