Type II restriction endonuclease, Hpy99I, obtainable from...

Details Type II restriction endonuclease, Hpy99I, obtainable from... Type II restriction endonuclease, Hpy99I, obtainable from...

1999-09-23

2001-08-28

Patterson, Jr., Charles L. (Department: 1652)

Chemistry: molecular biology and microbiology

Enzyme , proenzyme; compositions thereof; process for...

Hydrolase

Reexamination Certificate

active

06280992

ABSTRACT:

BACKGROUND OF THE INVENTION
The present invention relates to a new Type II restriction endonuclease,
Hpy
99I, obtainable from
Helicobacter pylori
J99,and to the process for producing the same.
Restriction endonucleases are a class of enzymes that occur naturally in bacteria. When they are purified away from other contaminating bacterial components, restriction endonucleases can be used in the laboratory to break DNA molecules into precise fragments. This property enables DNA molecules to be uniquely identified and to be fractionated into their constituent genes. Restriction endonucleases have proved to be indispensable tools in modern genetic research. They are the biochemical ‘scissors’ by means of which genetic engineering and analysis is performed.
Restriction endonucleases act by recognizing and binding to particular sequences of nucleotides (the ‘recognition sequence’) along the DNA molecule. Once bound, they cleave the molecule within, or to one side of, the sequence. Different restriction endonucleases have affinity for different recognition sequences. The majority of restriction endonucleases recognize sequences of 4 to 6 nucleotides in length, although recently a small number of restriction endonucleases which recognize 7 or 8 uniquely specified nucleotides have been isolated. Most recognition sequences contain a dyad axis of symmetry and in most cases all the nucleotides are uniquely specified. However, some restriciton endonucleases have degenerate or relaxed specificities in that they recognize multiple bases at one or more positions in their recognition sequence, and some restriction endonucleases recognize asymmetric sequences.
Hae
III, which recognizes the sequence 5′-GGCC-3′, is an example of a restriction endonuclease having a symmetrical, non-degenerate recognition sequence, while
Hae
II, which recognizes 5′-(Pu)GCGC(Py)-3′ typifies restriction endonucleases having a degenerate or relaxed recognition sequence. Endonucleases with symmetrical recognition sequences generally cleave symmetrically within or adjacent to the recognition site, while those that recognize asymmetric sequences tend to cleave at a distance of from 1 to 18 nucleotides away from the recognition site. More than two hundred unique restriction endonucleases have been identified among several thousands of bacterial species that have been examined to date.
Endonucleases are named according to the bacteria from which they are derived. Thus, the species
Haemophilus aegyptius
, for example synthesizes 3 different restriction endonucleases, named
Hae
I,
Hae
II and
Hae
III. These enzymes recognize and cleave the sequences 5′-(W)GGCC(W)-3 (SEQ ID NO:1)′, 5′-(Pu)GCGC(Py)-3′ and 5′-GGCC-3′ respectively.
Escherichia coli
RY13, on the other hand, synthesizes only one enzyme,
Eco
RI, which recognizes the sequence 5′-GAATTC-3′ (SEQ ID NO:2).
While not wishing to be bound by theory, it is thought that in nature, restriction endonucleases play a protective role in the welfare of the bacterial cell. They enable bacteria to resist infection by foreign DNA molecules like viruses and plasmids that would otherwise destroy or parasitize them. They impart resistance by binding to infecting DNA molecule and cleaving them in each place that the recognition sequence occurs. The disintegration that results inactivates many of the infecting genes and renders the DNA susceptible to further degradation by exonucleases.
A second component of restriction systems are the modification methylases. These enzymes are complementary to restriction endonucleases and they provide the means by which bacteria are able to protect their own DNA and distinguish it from foreign, infecting DNA. Modification methylases recognize and bind to the same nucleotide recognition sequence as the corresponding restriction endonuclease, but instead of breaking the DNA, they chemically modify one or other of the nucleotides within the sequence by the addition of a methyl group. Following methylation, the recognition sequence is no longer bound or cleaved by the restriction endonuclease. The DNA of a bacterial cell is always modified, by virtue of the activity of its modification methylase and it is therefore insensitive to the presence of the endogenous restriction endonuclease. It is only unmodified, and therefore identifiably foreign, DNA that is sensitive to restriction endonuclease recognition and attack. More than 3000 restriction endonucleases have been isolated from various bacterial strains. Of these, more than 200 recognize unique sequences, while the rest share common recognition specificities. Restriction endonucleases which recognize the same nucleotide sequence are termed “isoschizomers.” Although the recognition sequences of isoschizomers are the same, they may vary with respect to site of cleavage (e.g., XmaI v. SmaI, Endow, et al.,
J. Mol. Biol.
112:521 (1977); Waalwijk, et al.,
Nucleic Acids Res.
5:3231 (1978)) and in cleavage rate at various sites (XhoI v. PaeR7I, Gingeras, et al.,
Proc. Natl. Acad. Sci
. U.S.A. 80:402 (1983)).
There is a continuing need for novel Type II restriction endonucleases. Although Type II restriction endonucleases which recognize a number of specific nucleotide sequences are currently available, new restriction endonucleases which recognize novel sequences provide greater opportunities and ability for genetic manipulation. Each new unique endonuclease enables scientists to precisely cleave DNA at new positions within the DNA molecule, with all the opportunities this offers.
SUMMARY OF THE INVENTION
In accordance with the present invention, there is provided a novel restriction endonuclease obtainable from
Helicobacter pylori
J99 (NEB#1237), hereinafter referred to as “
Hpy
99I”, which endonuclease:
(1) recognizes the nucleotide sequence 5′-CGWCG-3′ (SEQ ID NO:3) in a double-stranded DNA
(wherein G represents guanine, C represents cytosine, A represents adenine, T represents thymine and W represents either A, or T);
(2) cleaves double-stranded PhiX174 DNA to produce 8 fragments, including fragments of 3063, 629, 602, 447, 389, and 176 base pairs, and 2 fragments smaller than 100 base pairs.
The present invention further relates to a process for the production of the novel restriction endonuclease
Hpy
99I. This process comprises either culturing
Helicobacter pylori
J99 under conditions suitable for expressing
Hpy
99I, collecting the cultured cells, obtaining a cell-free extract therefrom and separating and collecting the restriction endonuclease
Hpy
99I from the cell-free extract, or culturing a transformed host, such as
E. coli
, containing the genes for the
Hpy
99I methylase and endonuclease, collecting the cultured cells, obtaining a cell-free extract therefrom and separating and collecting the restriction endonuclease
Hpy
99I from the cell-free extract.


REFERENCES:
patent: 5200333 (1993-04-01), Wilson
Lunnen, et al., Gene 74:25-32 (1988).
Piekarowicz, et al., Nucleic Acids Res. 19:1831-1835 (1991).
Endow, et al., J. Mol. Biol. 112:521 (1977).
Waalwijk, et al., Nucleic Acids Res., 5:3231 (1978).
Gingeras, et al., Proc. Natl. Acad. Sci., 80:402 (1983).
Gingeras, et al., Nucleic Acids Res. 5:4105 (1978).
Sanger, et al., Proc. Natl. Acad. Sci., 74:5463 (1977).
Brown, et al., J. Mol. 140:143 (1980).

Affiliated with

Also associated with

Rating

Type II restriction endonuclease, Hpy99I, obtainable from... does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Type II restriction endonuclease, Hpy99I, obtainable from..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Type II restriction endonuclease, Hpy99I, obtainable from... will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-2512858