Efficiency of exonucleolytic action of apurinic/apyrimidinic endonuclease 1 towards matched and mismatched dNMP at the 3′ terminus of different oligomeric DNA structures correlates with thermal stability of DNA duplexes

Biochimica et Biophysica Acta - Proteins and Proteomics

Volumn 1764, Issue 4, 2006, Pages 699-706

  Dyrkheeva, Nadezhda S ^a,b   Lomzov, Alexander A ^a,b   Pyshnyi, Dmitriy V ^a,b   Khodyreva, Svetlana N ^a   Lavrik, Olga I ^a,b  

^a INSTITUTE OF CHEMICAL BIOLOGY AND FUNDAMENTAL MEDICINE   (Russian Federation)

^b NOVOSIBIRSK STATE UNIVERSITY   (Russian Federation)

Author keywords

3 5 exonuclease activity of APE1; Base excision repair; DNA mismatch; Proofreading; Thermal stability of DNA duplex

Indexed keywords

BUFFER; DNA (APURINIC OR APYRIMIDINIC SITE) LYASE; DNA (APURINIC OR APYRIMIDINIC SITE) LYASE 1; DOUBLE STRANDED DNA; HYDROXYL GROUP; NUCLEOTIDE; UNCLASSIFIED DRUG;

ARTICLE; BASE MISPAIRING; DNA DETERMINATION; DNA FLANKING REGION; DNA STRUCTURE; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME SUBSTRATE; EXCISION REPAIR; PRIORITY JOURNAL; THERMOSTABILITY;

DNA-(APURINIC OR APYRIMIDINIC SITE) LYASE; DRUG STABILITY; EXODEOXYRIBONUCLEASES; HEAT; HUMANS; NUCLEIC ACID HETERODUPLEXES; NUCLEOTIDES; OLIGODEOXYRIBONUCLEOTIDES;

EID: 33646080364     PISSN: 15709639     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.bbapap.2006.01.004     Document Type: Article

References (38)

1. Wilson III D.M., and Barsky D. The major human abasic endonuclease Ape1: formation, consequences and repair of abasic lesions in DNA. Mutat. Res. 485 (2001) 283-307
2. Demple B., Herman T., and Chen D.S. Cloning and expression of APE, the cDNA encoding the major human apurinic endonuclease: definition of a family of DNA repair enzymes. Proc. Natl. Acad. Sci. U. S. A. 88 (1991) 11450-11454
3. Fritz G. Human APE/Ref-1 protein. Int. J. Biochem. Cell Biol. 32 (2000) 925-929
4. Bennet R.A.O., Wilson III D.M., Wong D., and Demple B. Interaction of human apurinic endonuclease and DNA polymerase beta in the base excision repair pathway. Proc. Natl. Acad. Sci. U. S. A. 94 (1997) 7166-7169
5. Klungland A., and Lindahl T. Second pathway for completion of human DNA base excision-repair: reconstitution with purified proteins and requirement for DNase IV (FEN1). EMBO J. 16 (1997) 3341-3348
6. Wilson III D.M., Takeshita M., Grollman A.P., and Demple B. Incision activity of human apurinic endonuclease (Ape) at abasic site analogs in DNA. J. Biol. Chem. 270 (1995) 16002-16007
7. Robson C.N., Milne A.M., Pappin D.J., and Hickson I.D. Isolation of cDNA clones encoding an enzyme from bovine cells that repairs oxidative DNA damage in vitro: homology with bacterial repair enzymes. Nucleic Acids Res. 19 (1991) 1087-1092
8. Chou K.-M., Kukhanova M., and Cheng Y.-C. A novel action of human apurinic/apyrimidinic endonuclease. J. Biol. Chem. 275 (2000) 31009-31015
9. Chou K.-M., and Cheng Y.-C. An exonucleolitic activity of human apurinic/apyrimidinic endonuclease on 3′-mispaired DNA. Nature 415 (2002) 655-659
10. Parsons J.L., Dianova I.I., and Dianov G.L. APE1-dependent repair of DNA single-strand breaks containing 3′-end 8-oxoguanine. Nucleic Acids Res. 33 (2005) 2204-2209
11. Ishchenko A.A., Yang X., Ramotar D., and Saparbaev M. The 3′-5′ exonuclease of Apn1 provides an alternative pathway to repair 7,8-dihydro-8-oxodeoxyguanosine in Saccharomyces cerevisiae. Mol. Cell. Biol. 25 (2005) 6380-6390
12. Hadi M.Z., Ginalski K., Nguyen L.H., and Wilson III D.M. Determinants in nuclease specificity of Ape1 and Ape2, human homologues of Escherichia coli Exonuclease III. J. Mol. Biol. 316 (2005) 853-866
13. Lebedeva N.A., Khodyreva S.N., Favre A., and Lavrik O.I. AP endonuclease 1 has no biologically significant 3′-5′ exonuclease activity. Biochem. Biophys. Res. Commun. 300 (2003) 182-187
14. Wilson III D.M. Properties of and substrate determinants for the exonuclease activity of human apurinic endonuclease Ape. J. Mol. Biol. 1330 (2003) 1027-1037
15. Wong D., DeMott M.S., and Demple B. Modulation of the 3′-5′ exonuclease activity of human apurinic endonuclease (ape1) by its 5′ incised abasic DNA product. J. Biol. Chem. 278 (2003) 36242-36249
16. Lindahl T. Suppression of spontaneous mutagenesis in human cells by DNA base excision repair. Mutat. Res. 462 (2000) 129-135
17. Chou K.-M., and Cheng Y.-C. The exonuclease activity of human apurinic/apyrimidinic endonuclease (APE1): biochemical properties and inhibition by a natural dinucleotide P1, P4-Di (guanosine-5′) tetraphosphate (Gp4G). J. Biol. Chem. 278 (2003) 18289-18296
18. Gros L., Ishchenko A.A., Ide H., Elder R.H., and Saparbaev M.K. The major human AP endonuclease (Ape1) is involved in the nucleotide incision repair pathway. Nucleic Acids Res. 32 (2004) 73-81
19. Wilson III D.M. Ape1 abasic endonuclease activity is regulated by magnesium and potassium concentrations and is robust on alternative DNA structures. J. Mol. Biol. 345 (2005) 1003-1014
20. Dyrkheeva N.S., Khodyreva S.N., Suhanova M.V., Safronov I.V., Dezhurov S.V., and Lavrik O.I. 3′-5′ Exonuclease activity of human apurinic/apyrimidinic endonuclease 1 towards DNAs containing dNMP and their modified analogs at the 3′ end of single strand DNA break. Biochemistry (Moscow) 71 (2006) 254-265
21. Kane C.M., and Linn S. Purification and characterization of an apurinic/apyrimidinic endonuclease from HeLa cells. J. Biol. Chem. 256 (1981) 3405-3414
22. Sambrook J., Fritsch E.F., and Maniatis T. Molecular Cloning (1989), Cold Spring Harbor Laboratory Press, New York
23. SantaLucia Jr. J., and Hicks D. The thermodynamics of DNA structural motifs. Annu. Rev. Biophys. Biomol. Struct. 33 (2004) 415-440
24. Aboul-ela F., Koh D., Tinoco Jr. I., and Martin F.H. Base-base mismatches. Thermals of double helix formation for dCA3XA3G + dCT3YT3G (X, Y = A, C, G, T). Nucleic Acids Res. 13 (1985) 4811-4824
25. Cistulli C., Lavrik O.I., Prasad R., Hou E., and Wilson S.H. AP endonuclease and poly(ADP-ribose) polymerase-1 interact with the same base excision repair intermediate. DNA Repair (Amst) 3 (2004) 581-591
26. Scharer O.D. DNA damage and repair. Angew. Chem. Int. Ed. 42 (2003) 2074-2946
27. Henner W.D., Rodriguez L.O., Hecht S.M., and Haseltine W.A. Gamma Ray induced deoxyribonucleic acid strand breaks. 3′ Glycolate termini. J. Biol. Chem. 258 (1983) 711-713
28. Karimi-Busheri F., Daly G., Robins P., Canas B., Pappin D.J.C., Sgouros J., Milleri G.G., Fakhrai H., Davis E.M., Le Beau M.M., and Weinfeld M. Molecular characterization of a human DNA kinase. J. Biol. Chem. 274 (1999) 24187-24194
29. Jilani A., Ramotar D., Slack C., Ong C., Ming Yang X., Scherer S.W., and Lasko D.D. Molecular cloning of the human gene, PNKP, encoding a polynucleotide kinase 3′-phosphatase and evidence for its role in repair of DNA strand breaks caused by oxidative damage. J. Biol. Chem. 274 (1999) 24176-24186
30. Fan J., and Wilson III D.M. Protein-protein interactions and posttranslational modifications in mammalian base excision repair. Free Radic. Biol. Med. 38 (2005) 1121-1138
31. Sukhanova M.V., Khodyreva S.N., Lebedeva N.A., Prasad R., Wilson S.H., and Lavrik O.I. Human base excision repair enzymes apurinic/apyrimidinic endonuclease1 (APE1), DNA polymerase b and poly(ADP-ribose) polymerase 1: interplay between strand-displacement DNA synthesis and proofreading exonuclease activity. Nucleic Acids Res. 33 (2005) 1222-1229
32. Ranalli T.A., Tom S., and Bambara R.A. AP endonuclease 1 coordinates flap endonuclease 1 and DNA ligase I activity in long patch base excision repair. J. Biol. Chem. 277 (2002) 41715-41724
33. Bambara R.A., Murante R.S., and Henricksen L.A. Enzymes and reactions at the eukaryotic DNA replication fork. J. Biol. Chem. 272 (1997) 4647-4650
34. Kim K., Biade S., and Matsumoto Y. Involvement of Flap Endonuclease 1 in Base Excision DNA Repair. J. Biol. Chem. 273 (1998) 8842-8848
35. Jonsson Z.O., Hindges R., and Hubscher U. Regulation of DNA replication and repair proteins through interaction with the front side of proliferating cell nuclear antigen. EMBO J. 17 (1998) 2412-2425
36. Montecucco A., Rossi R., Levin D.S., Gary R., Park M.S., Motycka T.A., Ciarrocci G., Villa A., Biamonti G., and Tomkinson A.E. DNA ligase I is recruited to sites of DNA replication by an interaction with proliferating cell nuclear antigen: identification of a common targeting mechanism for the assembly of replication factories. EMBO J. 17 (1998) 3786-3795
37. Tom S., Henricksen L.A., and Bambara R.A. Mechanism whereby proliferating cell nuclear antigen stimulates flap endonuclease 1. J. Biol. Chem. 275 (2000) 10498-10505
38. Tom T.S., Henricksen L.A., Park M.S., and Bambara R.A. DNA ligase I and proliferating cell nuclear antigen form a functional complex. J. Biol.Chem. 276 (2001) 24817-24825