Domain organization and biochemical features of Sulfolobus solfataricus DNA polymerase

Extremophiles

Volumn 2, Issue 3, 1998, Pages 171-177

  Pisani, Franceses M ^a   De Felice, Mariarita ^a   Manco, Giuseppe ^a   Rossi, Mosè ^a  

^a CNR   (Italy)

Author keywords

3' 5' Exonuclease Modular organization; DNA polymerase; DNA replication; Sulfolobus solfataricus

Indexed keywords

3',5' EXONUCLEASE; AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; CARBOXY TERMINAL SEQUENCE; CLONED GENE; DNA POLYMERASE; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME STRUCTURE; PROTEIN HYDROLYSIS; TARGETED MUTAGENESIS;

CATALYTIC DOMAIN; CHROMOSOME MAPPING; DNA, ARCHAEAL; DNA-DIRECTED DNA POLYMERASE; GENES, ARCHAEAL; PROTEIN CONFORMATION; RECOMBINANT PROTEINS; SULFOLOBUS;

ARCHAEA; BACTERIA (MICROORGANISMS); PROKARYOTA; SULFOLOBUS SOLFATARICUS;

EID: 0032142824     PISSN: 14310651     EISSN: None     Source Type: Journal    
DOI: 10.1007/s007920050057     Document Type: Review

References (40)

1. Bambara RA, Murante RS, Henricksen LA (1997) Enzymes and reactions at the eukaryotic DNA replication fork. J Biol Chem 272:4647-4650
2. Bernad A, Blanco L, Lazaro JM, Martin G, Salas M (1989) A conserved 3′-5′ exonucleasc active site in prokaryotic and eukaryotic DNA polymerases. Cell 59:219-228
3. Blanco L, Salas M (1996) Relating structurre to function in φ29 DNA polymerase. J Biol Chem 271:8509-8512
4. Blanco L, Bernad A, Blasco MA, Salas M (1991) A general structure for DNA-dependent DNA polymerases. Gene 100:27-38
5. Braithwaite DK, Ito J (1993) Compilation, alignment and phylogenetic relationships of DNA polymerases. Nucleic Acids Res 21:787-802
6. Bull CJ, White O, Olsen GJ, Zhou L, Fleischmann RD, Sutton GG, Blake JA, FitzGerald LM, Clayton RA, Gocayne JD, Kerlavage AR, Dougherty BA, Tomb J-F, Adams MD, Reich CI, Overbeek R, Kirkness EF, Weinstock KG, Merrick JM, Glodck A, Scott JL, Geoghagen NSM, Weidman JF, Fuhrmann JL, Presley EA, Nguyen D, Utterback TR, Kelley JM, Peterson JD, Sadow PW, Hanna MC, Cotton MD, Hurst MA, Roberts KM, Kaine BP, Borodovsky M, Klenk H-P, Fraser CM, Smith HO, Woese CR, Venter JC (1996) Complete genome sequence of the methanogenic archaeon Methanococcus jannaschii. Science 273:1058-1073
7. Davies JFN, Almassy RJ, Hostomska Z, Ferre RA, Hostomski Z (1994) 2.3 Å crystal structure of the catalytic domain of DNA polymerase b. Cell 76:1123-1133
8. Dennis PP (1997) Ancient ciphers: translation in Archaea. Cell 89:1007-1010
9. Derbyshire V, Pinsonneault JK, Joyce CM (1995) Structure-function analysis of 3′ → 5′-exonuclease of DNA polymerases. Methods Enzymol 262:363-385
10. Edgell DR, Doolittle WF (1997) Archaea And the origin(s) of DNA replication proteins. Cell 89:995-998
11. Elle C, De Recondo AM, Forterre P (1989) Thermostable DNA polymerase isolated from the archaebacterium Sulfolobus acidocaldarius. Purification, characterization and immunological properties. Eur J Biochem 178:619-626
12. Forterre P, Charbonnier F, Marguet E, Harper F, Henckes G (1992) Chromosome structure and DNA topology in extremely thermophilic Archaebacteria. In: Danson MJ, Hough DW, Lunt GG (eds) The Archaebacteria: biochemistry and biotechnology. Biochemical Society, London, pp 99-112
13. Hubscher U (1983) DNA polymerase in eukaryotes and prokaryotes. Expcrientia (Basel) 39:1-26
14. Joyce CM, Steitz TA (1994) Function and structure relationships in DNA polymerases. Annu Rev Biochem 63:777-822
15. Kim Y, Horn SH, Wang J, Lee DS, Suh SW, Steitz TA (1995) Crystal structure of Thermus aqitaticus DNA polymerase. Nature (Lond) 376:612-616
16. Klimczak LJ, Grummt F, Burger KJ (1986) Purification and characterization of a DNA polymerase from the archaebacterium Methanobacterium thermoautotrophicum. Biochemistry 25:4850-4855
17. Kohlstaedt LA, Wang J, Friedman JM, Rice PA, Steitz TA (1992) Crystal structure at 3.5 Å resolution of HIV-1 reverse transcriptase complexed with an inhibitor. Science 256:1783-1790
18. Kornberg A, Baker TA (1992) DNA polymerase I of E. coli. In: Kornberg A, Baker TA (eds) DNA replication. Freeman, New York, pp 113-164
19. Korolev S, Nayal M, Barnes WM, DiCera E, Waksman G (1995) Crystal structure of the large fragment of Thermus aquaticus DNA polymerase I at 2.5 Å resolution: structural basis for thermostability. Proc Natl Acad Sci USA 90:4299-4303
20. Kuryan J, O'Donnell M (1993) Sliding clamps of DNA polymerases. J Mol Biol 234:915-925
21. Longley MJ, Mosbaugh DW (1991) Characterization of DNA metabolizing enzymes in situ following polyacrylamide gel electrophoresis. Biochemistry 30:2655-2664
22. Maki H, Maki S, Kornberg A (1988) DNA polymerase III holoenzyme of Escherichia coli Distinctive processive polymerase reconstituted from purified subunits. J Biol Chem 263:6570-6579
23. Mullen GP, Wilson SH (1997) DNA polymerase b in abasie site repair: a structurally conserved helix-hairpin-helix motif in lesion detection by base excision repair enzymes. Biochemistry 36:4713-4717
24. Ollis DL, Brick P, Hamlin R, Xuong NG, Steitz TA (1985) Structure of large fragment of Escherichia coli DNA polymerase I. Nature (Lond) 313:762-766
25. Olsen GJ, Woese CR (1997) Archaeal genomics: an overview. Cell 89:991-994
26. Pelletier H, Sawaya MR, Kumar A, Wilson SH, Kraut J (1994) Structures of ternary complexes of rat DNA polymerase β, a DNA template-primer, and ddCTP. Science 264:1891-1903
27. Perler FB, Kumar S, Kong H (1996) Thermostable DNA polymerases. Adv Protein Chem 48:377-435
28. Pisani FM, Rossi M (1994) Evidence that an archaeal α-like DNA polymerase has a modular organization of its associated catalytic functions. J Biol Chem 269:7887-7892
29. Pisani FM, De Martine C, Rossi M (1992) A DNA polymerase from the archaeon Sulfolobus solfataricus shows sequence similarity to family B DNA polymcrases. Nucleic Acids Res 20:2711-2716
30. Pisani FM, Manco G, Carratore V, Rossi M (1996) Domain organization and DNA-induced conformational changes of an archaeal family B DNA polymerase. Biochemistry 35:9155-9166
31. Prangishvili D, Klenk HP (1993) Nucleotide sequence of the gene for a 74kDa DNA polymerase from the archaeon Sulfolobus solfataricus. Nucleic Acids Res 21:2768
32. Reeve JN, Sandman K, Daniels CJ (1997) Archaeal histories, nucleosomes, and transcription initiation. Cell 89:999-1002
33. Rella R, Raia CA, Pisani FM, D'Auria S, Nucci R, Gamhacorta A, De Rosa M, Rossi M (1990) Purification and properties of a thermophilic and thermostable DNA polymerase from the archaebacterium Sulfolobus solfataricus. Ital J Biochem 39:83-99
34. Rossi M, Relia R, Pensa M, Bartolucci S, De Rosa M, Gambacorta A, Raia CA, Dell'Aversano Orabona N (1986) Structure and properties of a thermophililc and thermostable DNA polymerase isolated from Sulfolobus solfataricus. Syst Appl Biochem 7:337-341
35. Stocki SA, Nonay RL, Reha-Krantz LJ (1995) Dynamics of bacteriophage T4 DNA polymerase function: identification of amino acid residues that affect switching between polymerase and 3′-5′ exonuclease activties. J Mol Biol 254:15-28
36. Truninger V, Lazaro JM, Salas M, Blanco L (1995) A DNA binding motif coordinating synthesis and degradation in proofreading DNA polymerases. EMBO J 15:3430-3441
37. Uemori T, Ishino Y, Doi H, Kato I (1995) The hyperthermophilic archaeon Pyrodictium occultum has two α-like DNA polymerases. J Bacteriol 177:2164-2177
38. Uemori T, Satoh Y, Kato I, Doi H, Ishino Y (1996) Organization of a novel DNA polymerase supposed to be a replicational enzyme from Pyrococcus furiosus (abstract). In: "Thermophiles '96" international conference, Athens, GA, USA, 4-9 September 1996, p 2.I.2
39. Wang J, Sattar AKM, Wang CC, Karam JD, Konigsberg WH, Steitz TA (1997) Crystal structure of a pol, a family replication DNA polymerase from bacteriophage RB69. Cell 89:1087-1089
40. Zabel H-P, Holler E, Winter J (1987) Mode of inhibition of the DNA polymerase of Methanococcus vannielii by aphidicolin. Eur J Biochem 165:171-175