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PROSITE documentation PDOC00107

DNA polymerase family B signature





Description

Replicative DNA polymerases (EC 2.7.7.7) are the key enzymes catalyzing the accurate replication of DNA. They require either a small RNA molecule or a protein as a primer for the de novo synthesis of a DNA chain. On the basis of sequence similarity, a number of DNA polymerases have been grouped [1,2,3,4,5,6,7] under the designation of DNA polymerase family B. These are:

  • Higher eukaryotes polymerases α.
  • Higher eukaryotes polymerases delta.
  • Yeast polymerase I/α (gene POL1), polymerase II/epsilon (gene POL2), polymerase III/delta (gene POL3) and polymerase REV3.
  • Escherichia coli polymerase II (gene dinA or polB).
  • Archaebacterial polymerases.
  • Polymerases of viruses from the herpesviridae family.
  • Polymerases from Adenoviruses.
  • Polymerases from Baculoviruses.
  • Polymerases from Chlorella viruses.
  • Polymerases from Poxviruses.
  • Bacteriophage T4 polymerase.
  • Podoviridae bacteriophages Phi-29, M2 and PZA polymerase.
  • Tectiviridae bacteriophage PRD1 polymerase.
  • Polymerases encoded on mitochondrial linear DNA plasmids in various fungi and plants (Kluyveromyces lactis pGKL1 and pGKL2, Agaricus bitorquis pEM, Ascobolus immersus pAI2, Claviceps purpurea pCLK1, Neurospora Kalilo and Maranhar, maize S-1, etc).

Six regions of similarity (numbered from I to VI) are found in all or a subset of the above polymerases. The most conserved region (I) includes a conserved tetrapeptide with two aspartate residues. Its function is not yet known. However, it has been suggested [3] that it may be involved in binding a magnesium ion. We selected this conserved region as a signature for this family of DNA polymerases.

Last update:

December 2004 / Pattern and text revised.

Technical section

PROSITE method (with tools and information) covered by this documentation:

DNA_POLYMERASE_B, PS00116; DNA polymerase family B signature  (PATTERN)


References

1AuthorsJung G.H., Leavitt M.C., Hsieh J.-C., Ito J.
TitleBacteriophage PRD1 DNA polymerase: evolution of DNA polymerases.
SourceProc. Natl. Acad. Sci. U.S.A. 84:8287-8291(1987).
PubMed ID3479792

2AuthorsBernad A., Zaballos A., Salas M., Blanco L.
TitleStructural and functional relationships between prokaryotic and eukaryotic DNA polymerases.
SourceEMBO J. 6:4219-4225(1987).
PubMed ID3127204

3AuthorsArgos P.
TitleA sequence motif in many polymerases.
SourceNucleic Acids Res. 16:9909-9916(1988).
PubMed ID2461550

4AuthorsWang T.S.-F., Wong S.W., Korn D.
TitleHuman DNA polymerase alpha: predicted functional domains and relationships with viral DNA polymerases.
SourceFASEB J. 3:14-21(1989).
PubMed ID2642867

5AuthorsDelarue M., Poch O., Tordo N., Moras D., Argos P.
TitleAn attempt to unify the structure of polymerases.
SourceProtein Eng. 3:461-467(1990).
PubMed ID2196557

6AuthorsIto J., Braithwaite D.K.
TitleCompilation and alignment of DNA polymerase sequences.
SourceNucleic Acids Res. 19:4045-4057(1991).
PubMed ID1870963

7AuthorsBraithwaite D.K., Ito J.
TitleCompilation, alignment, and phylogenetic relationships of DNA polymerases.
SourceNucleic Acids Res. 21:787-802(1993).
PubMed ID8451181



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