Nucleotide Patents (Class 435/89)
  • Publication number: 20040091985
    Abstract: A gene encoding an enzyme required for operation of a novel biochemical pathway for oxidation of the reduced phosphorus (P) compound phosphite was cloned from Pseudomonas and also found in other bacteria. The enzyme (designated PtxD) was overproduced in the host Escherichia coli by use of a recombinant system and purified to homogeneity via a two-step affinity protocol and characterized. The enzyme stoichiometrically produces NADH and phosphate from NAD and phosphite. Mechanistic studies indicate stereoselective transfer of hydride from phosphite to the Re-face of NAD+ with observed steady-state kinetic isotope effects of 2.1 on Vmax and 1.8 on Vmax/Km. The novel enzyme is useful for methods requiring regenerating the cofactor NADH, for use in synthetic oxidoreductases, and to synthesize chiral compounds, complex carbohydrates, and isotopically-labelled compounds.
    Type: Application
    Filed: February 21, 2003
    Publication date: May 13, 2004
    Inventors: William W. Metcalf, Wilfred A. van der Donk, Jennifer M. Vrtis, Andrea K. White, Amaya M. Garcia Costas
  • Publication number: 20040072303
    Abstract: A glyoxal-guanosine-group compound is prepared either by reacting glyoxal-guanine with any one of ribose-1-phosphate and 2-deoxyribose-1-phosphate in the presence of purine nucleoside phosphorylase, or by reacting glyoxal-guanine with any one selected from the group consisting of uridine, 2′-deoxyuridine and thymidine, together with phosphate ion, in the presence of purine nucleoside phosphorylase and pyrimidine nucleoside phosphorylase. The glyoxal-guanosine-group compound is then decomposed by alkali, whereby a guanosine-group compound consisting of guanosine and 2′-deoxyguanosine is prepared.
    Type: Application
    Filed: July 8, 2003
    Publication date: April 15, 2004
    Applicant: YUKI GOSEI KOGYO CO., LTD.
    Inventors: Yoichi Mikami, Seiichiro Matsumoto, Yoshinori Hayashi, Toyoki Sato
  • Publication number: 20040067558
    Abstract: A glyoxal-guanosine-group compound is prepared either by reacting glyoxal-guanine with any one of ribose-1-phosphate and 2-deoxyribose-1-phosphate in the presence of purine nucleoside phosphorylase, or by reacting glyoxal-guanine with any one selected from the group consisting of uridine, 2′-deoxyuridine and thymidine, together with phosphate ion, in the presence of purine nucleoside phosphorylase and pyrimidine nucleoside phosphorylase. The glyoxal-guanosine-group compound is then decomposed by alkali, whereby a guanosine-group compound consisting of guanosine and 2′-deoxyguanosine is prepared.
    Type: Application
    Filed: July 8, 2003
    Publication date: April 8, 2004
    Applicant: YUKI GOSEI KOGYO CO., LTD.
    Inventors: Yoichi Mikami, Seiichiro Matsumoto, Yoshinori Hayashi, Toyoki Sato
  • Publication number: 20040067557
    Abstract: According to the present invention, UDP-N-acetylgalactosamine and an N-acetylgalactosamine-containing carbohydrate can be produced using a protein having UDP-N-acetylglucosamine 4-epimerase activity.
    Type: Application
    Filed: June 17, 2003
    Publication date: April 8, 2004
    Inventors: Tetsuo Endo, Satoshi Koizumi, Kazuhiko Tabata, Akio Ozaki
  • Patent number: 6673576
    Abstract: The present invention relates to a process for producing 5′-inosinic acid or 5′-guanylic acid for use in seasonings or the like from inosine or guanosine or a precursor thereof using an adenosine triphosphate (ATP)-regenerating microorganism containing a DNA encoding a protein that has the activity of forming 5′-inosinic acid or 5′-guanylic acid from inosine or guanosine. Further, the present invention relates to a novel protein having the inosine-guanosine kinase activity, a gene encoding said protein, a recombinant DNA containing said gene, and a microorganism which is transformed with said recombinant DNA.
    Type: Grant
    Filed: May 13, 1998
    Date of Patent: January 6, 2004
    Assignee: Ajinomoto Co., Inc.
    Inventors: Yoshihiro Usuda, Hisashi Kawasaki, Megumi Shimaoka, Takashi Utagawa
  • Patent number: 6664078
    Abstract: The present invention relates to the production of biomass for the isolation of ccc plasmid DNA comprising culturing a bacterial transformant in a bioreactor containing an antibiotic-free batch medium under batch-conditions and, at the end of the batch phase, feeding under feed-back conditions the portion of a feed-back medium after the rise of the concentration of dissolved oxigen above a threshold-set point. Said feed-back medium comprises besides a carbon source a magnesium salt, preferably in concentrations above 20 mM. Preferably, the bacterial transformant is harvested after the end of the culture and frozen or freeze-dried. Also preferred is that ccc plasmid DNA is, optionally directly, isolated after harvesting the bacteria.
    Type: Grant
    Filed: November 21, 2000
    Date of Patent: December 16, 2003
    Assignee: Qiagen GmbH
    Inventors: Torsten Schmidt, Karl Friehs, Erwin Flaschel, Martin Schleef
  • Patent number: 6660275
    Abstract: The present invention provides a method of nucleic acid, including DNA, immunization of a host, including humans, against disease caused by infection by a strain of Chlamydia, specifically C. pneumoniae, employing a vector, containing a nucleotide sequence encoding a CPN100605 polypeptide of a strain of Chlamydia pneumoniae and a promoter to effect expression of the CPN100605 polypeptide in the host. Modifications are possible within the scope of this invention.
    Type: Grant
    Filed: July 26, 1999
    Date of Patent: December 9, 2003
    Assignee: Aventis Pasteur Limited
    Inventors: Andrew D. Murdin, Raymond P. Oomen, Pamela L. Dunn
  • Publication number: 20030207405
    Abstract: The invention provides a method for producing a cytosine nucleoside compound from pentose-1-phosphate and cytosine or a derivative thereof using a nucleoside phosphorylase reactive to cytosine or a bacterium having the enzyme activity. The invention also provides a method for specifically reducing an activity to degrade the substrates or the product, resulting in efficient production of the cytosine nucleoside compound. According to the invention, little by-product is produced in producing cytonucleocide compounds.
    Type: Application
    Filed: April 30, 2002
    Publication date: November 6, 2003
    Inventors: Tadashi Araki, Ichirou Ikeda, Kaori Matoishi, Reiko Abe, Toshihiro Oikawa, Yasuko Matsuba, Hiroki Ishibashi, Kiyoteru Nagahara, Yasushi Fukuiri
  • Patent number: 6620596
    Abstract: A glyoxal-guanosine-group compound is prepared either by reacting glyoxal-guanine with any one of ribose-1-phosphate and 2-deoxyribose-1-phosphate in the presence of purine nucleoside phosphorylase, or by reacting glyoxal-guanine with any one selected from the group consisting of uridine, 2′-deoxyuridine and thymidine, together with phosphate ion, in the presence of purine nucleoside phosphorylase and pyrimidine nucleoside phosphorylase. The glyoxal-guanosine-group compound is then decomposed by alkali, whereby a guanosine-group compound consisting of guanosine and 2′-deoxyguanosine is prepared.
    Type: Grant
    Filed: March 14, 2001
    Date of Patent: September 16, 2003
    Assignee: Yuki Gosei Kogyo Co., Ltd.
    Inventors: Yoichi Mikami, Seiichiro Matsumoto, Yoshinori Hayashi, Toyoki Sato
  • Publication number: 20030166166
    Abstract: The present invention is directed methods of purine synthesis using a modified amidotransferase, wherein the modified glutamine PRPP amidotransferase has reduced sensitivity to end-product inhibition of synthesizing purine nucleotides.
    Type: Application
    Filed: April 3, 2003
    Publication date: September 4, 2003
    Inventors: Howard Zalkin, Janet L. Smith, Robert L. Switzer
  • Publication number: 20030134403
    Abstract: This invention provides methods for practical enzymatic conversion of GDP-mannose to GDP-fucose. These methods are useful for efficient synthesis of reactants used in the synthesis of fucosylated oligosaccharides.
    Type: Application
    Filed: July 25, 2002
    Publication date: July 17, 2003
    Applicant: Cytel Corporation
    Inventor: Eric R. Sjoberg
  • Publication number: 20030130175
    Abstract: A method for preparing saccharide compositions is disclosed. The method is reiterative and comprises the following three steps.
    Type: Application
    Filed: December 23, 2002
    Publication date: July 10, 2003
    Applicant: The Trustees of the University of Pennsylvania
    Inventor: Stephen A. Roth
  • Patent number: 6586216
    Abstract: The present invention is directed to a modified amidotransferase. The amino acid sequence of the modified amidotransferase differs from the amino acid sequence of a native E. coli glutamine PRPP amidotransferase in that one or more amino acid residues of the modified amidotransferase are substituted at positions equivalent to amino acid positions in Bacillus amidotransferase selected from the group consisting of 282, 283, 307, and 347 of SEQ ID NO:1, wherein the modified amidotransferase is less sensitive to end-product inhibition than is the native E. coli glutamine PRPP amidotransferase.
    Type: Grant
    Filed: March 13, 2001
    Date of Patent: July 1, 2003
    Assignees: Purdue Research Foundation, The Board of Trustees of the University of Illinois
    Inventors: Howard Zalkin, Janet L. Smith, Robert L. Switzer
  • Patent number: 6586214
    Abstract: The present invention is directed to isolated polynucleotides coding for phosphoglucose isomerase (pgi) from coryneform bacteria. In addition, the invention includes methods for increasing the metabolic flux through pentose phosphate cycle of bacteria by reducing or eliminating the activity of pgi. These methods may be used to increase the fermentative production of nucleotides, vitamins and amino acids.
    Type: Grant
    Filed: September 15, 1999
    Date of Patent: July 1, 2003
    Assignee: Degussa AG
    Inventors: L. K. Dunican, Ashling McCormack, Cliona Stapleton, Kevin Burke, Michael O'Donohue, Achim Marx, Bettina Mockel
  • Publication number: 20030082752
    Abstract: The invention provides a GDP-mannose-pyrophosphorylase, which is suitable for use in continuous multiple stage processes. The mannose- or mannose-derivative-specific GDP-mannose-prophosphorylase, which can be isolated from microorganisms, has a specific activeity of≧2U/mg, is prepared.
    Type: Application
    Filed: March 19, 2001
    Publication date: May 1, 2003
    Inventors: Jorg Eberhard Ritter, Lothar Elling, Maria-Regina Kula, Stefen Verseck
  • Publication number: 20030073200
    Abstract: The invention provides methods for producing products comprising improved host cells genetically engineered to have uncoupled productive and catabolic pathways. In particular, the present invention provides host cells having a modification in nucleic acid encoding an endogenous enzymatic activity that phosphorylates D-glucose at its 6th carbon and/or a modification of nucleic acid encoding an enzymatic activity that phosphorylates D-gluconate at its 6th carbon. Such improved host cells are used for the production of products, such as, ascorbic acid intermediates. Methods for making and using the improved host cells are provided. Nucleic acid and amino acid sequences for glucokinase and gluconokinase are provided.
    Type: Application
    Filed: April 4, 2002
    Publication date: April 17, 2003
    Inventors: Timothy C. Dodge, Fernando Valle
  • Publication number: 20030064394
    Abstract: The present invention relates to an ATP-regeneration reaction system comprising the steps of acting adenylate kinase on AMP to convert it into ADP and acting a polyphosphoric acid synthetase in the presence of a polyphosphoric acid compound to convert it into ATP and a polyphosphoric acid compound; an ATP-regeneration reaction system comprising the steps of acting a phosphotransferase on AMP in the presence of a polyphosphoric acid compound to convert it into ADP and then acting a polyphosphoric acid synthetase on the resulting ADP to convert it into ATP; and a method for detecting or inspecting adenine nucleotide or RNA and an ATP-amplification method, which make use of the foregoing regeneration system.
    Type: Application
    Filed: July 3, 2002
    Publication date: April 3, 2003
    Applicant: SATAKE CORPORATION
    Inventors: Hisao Ohtake, Akio Kuroda, Shotaro Tanaka
  • Patent number: 6528066
    Abstract: The present invention provides methods directed to detecting antibodies that specifically bind to a varicella zoster polypeptide, detecting the presence of a varicella zoster virus in an animal, diagnosing a disease caused by varicella zoster virus, and detecting a varicella zoster virus having a single nucleotide polymorphism in ORF68. The present invention also provides a vaccine composition, a method for producing a modified attenuated varicella zoster virus, isolated polynucleotides, and isolated polypeptides, and viruses.
    Type: Grant
    Filed: September 14, 2000
    Date of Patent: March 4, 2003
    Assignee: University of Iowa Research Foundation
    Inventors: Charles F. Grose, Richard Santos
  • Patent number: 6504024
    Abstract: Propargylethoxyamino nucleosides are disclosed having the structure wherein R1 and R2 are —H, lower alkyl, or label; B is a 7-deazapurine, purine, or pyrimidine nucleoside base; W1 is —H or —OH; W2 is —OH or a moiety which renders the nucleoside incapable of forming a phosphodiester bond at the 3′-position; and W3 is —PO4, —P2O7, —P3O10, phosphate analog, or —OH. Additionally, a primer extension method is provided employing the above propargylethoxyamino nucleosides.
    Type: Grant
    Filed: June 14, 2001
    Date of Patent: January 7, 2003
    Assignee: PE Corporation (NY)
    Inventors: Shaheer H. Khan, Steven M. Menchen, Barnett B. Rosenblum
  • Patent number: 6479628
    Abstract: Disclosed are purified and isolated DNA sequences encoding eukaryotic proteins possessing biological properties of inosine 5′-monophosphate dehydrogenase (“IMPDH”). Illustratively, mammalian (e.g., human) IMPDH-encoding DNA sequences are useful in transformation or transfection of host cells for the large scale recombinant production of the enzymatically active expression products and/or products (e.g., GMP) resulting from IMPDH catalyzed synthesis in cells. Vectors including IMPDH-encoding DNA sequences are useful in gene amplification procedures. Recombinant proteins and synthetic peptides provided by the invention are useful as immunological reagents and in the preparation of antibodies (including polyclonal and monoclonal antibodies) for quantitative detection of IMPDH.
    Type: Grant
    Filed: November 13, 2000
    Date of Patent: November 12, 2002
    Assignee: Arch Development Corporation
    Inventors: Frank R. Collart, Eliezer Huberman
  • Publication number: 20020160461
    Abstract: In a method for producing a target substance utilizing a microorganism comprising culturing the microorganism in a medium to produce and accumulate the target substance in the medium and collecting the target substance, there is used, as the microorganism, a mutant strain or a genetic recombinant strain constructed from a parent strain of the microorganism having a respiratory chain pathway of high energy efficiency and a respiratory chain pathway of low energy efficiency as respiratory chain pathways, and having either one or both of the following characteristics:
    Type: Application
    Filed: July 5, 2001
    Publication date: October 31, 2002
    Applicant: Ajinomoto Co., Inc.
    Inventors: Yuta Nakai, Kazuo Nakanishi, Yoshio Kawahara, Hisao Ito, Osamu Kurahashi
  • Patent number: 6441160
    Abstract: Long chain nucleic acids such as plasmids are separated from contaminants including protein, RNA, DNA and mixtures thereof by using hydrophobic interaction chromatography or hydrophobic interaction chromatography and ion exchange chromatography. To carry out hydrophobic interaction chromatography, first and second columns containing first and second column materials are used. The first column material adsorbs protein and RNA at a salt concentration at which plasmid is not adsorbed to produce an eluate containing plasmid and DNA. The second column material adsorbs plasmid and DNA from the eluate at a salt concentration which the first column material adsorbs protein and RNA but not the plasmid. The plasmid is eluted from the second column material at a salt concentration at which plasmid is eluted. A tandem column may be formed by connecting in series the first and second columns. The connection between the columns is broken before eluting plasmid from the second column material.
    Type: Grant
    Filed: May 11, 1999
    Date of Patent: August 27, 2002
    Assignee: Tosoh Corporation
    Inventors: Takashi Kitamura, Shigeru Nakatani
  • Publication number: 20020098494
    Abstract: Nucleoside 5′-phosphate ester is produced by culturing a bacterium belonging to the genus Escherichia having an ability to produce nucleoside 5′-phosphate ester, in which ushA gene and aphA gene do not function normally, in a medium to produce and accumulate nucleoside 5′-phosphate ester in the medium, and collecting the nucleoside 5′-phosphate ester from the medium.
    Type: Application
    Filed: June 27, 2001
    Publication date: July 25, 2002
    Applicant: AJINOMOTO CO., INC.
    Inventors: Masahiro Kakehi, Yoshihiro Usuda, Yukiko Tabira, Shinichi Sugimoto
  • Publication number: 20020081666
    Abstract: The present invention discloses nucleic acid enzymes capable of cleaving single-stranded DNA in a site specific manner.
    Type: Application
    Filed: December 20, 2000
    Publication date: June 27, 2002
    Inventor: Gerald F. Joyce
  • Publication number: 20020064836
    Abstract: This invention relates to a process for producing a sugar nucleotide, in which a) a culture broth of a microorganism capable of producing NTP from a nucleotide precursor, or a treated product of the culture broth, and b) a culture broth of a microorganism capable of producing a sugar nucleotide from a sugar and NTP, or a treated product of the culture broth, are used as enzyme sources; a process for producing a complex carbohydrate, in which the above-described a) and b) and c) a culture broth of a microorganism, an animal cell or an insect cell capable of producing a complex carbohydrate from a sugar nucleotide and a complex carbohydrate precursor, or a treated product of the culture broth, are used as enzyme sources; a process for producing a complex carbohydrate, in which a culture broth of a microorganism, an animal cell or an insect cell capable of producing a complex carbohydrate from a sugar nucleotide and a complex carbohydrate precursor, or a treated product of the culture broth, is as an enzyme sour
    Type: Application
    Filed: May 13, 1998
    Publication date: May 30, 2002
    Inventors: SATOSHI KOIZUMI, KATSUTOSHI SASAKI, TETSUO ENDO, KAZUHIKO TABATA, AKIO OZAKI
  • Patent number: 6365374
    Abstract: 2′-deoxy-2′-alkylnucleotides useful for stabilizing enzymatic nucleic acid molecules and antisense molecules.
    Type: Grant
    Filed: August 18, 1999
    Date of Patent: April 2, 2002
    Assignee: Ribozyme Pharmaceuticals, Inc.
    Inventors: Nassim Usman, Alexander Karpeisky, Leonid Beigelman, Anil Modak
  • Publication number: 20020025560
    Abstract: This invention relates to a process for producing a sugar nucleotide, in which a) a culture broth of a microorganism capable of producing NTP from a nucleotide precursor, or a treated product of the culture broth, and b) a culture broth of a microorganism capable of producing a sugar nucleotide from a sugar and NTP, or a treated product of the culture broth, are used as enzyme sources; a process for producing a complex carbohydrate, in which the above-described a) and b) and c) a culture broth of a microorganism, an animal cell or an insect cell capable of producing a complex carbohydrate from a sugar nucleotide and a complex carbohydrate precursor, or a treated product of the culture broth, are used as enzyme sources; a process for producing a complex carbohydrate, in which a culture broth of a microorganism, an animal cell or an insect cell capable of producing a complex carbohydrate from a sugar nucleotide and a complex carbohydrate precursor, or a treated product of the culture broth, is as an enzyme sour
    Type: Application
    Filed: July 19, 2001
    Publication date: February 28, 2002
    Inventors: Satoshi Koizumi, Katsutoshi Sasaki, Tetsuo Endo, Kazuhiko Tabata, Akio Ozaki
  • Patent number: 6350595
    Abstract: Subject of this invention is a process for the chemical synthesis of polynucleotides having totally or partially random sequences, based on the utilization, as synthesis monomer units for the random sequence part, or presynthesized mononucleotides and dinucleotides. Said synthesis is carried out on separate supports, so that on each of those supports is alternated at least one reaction cycle wherein a mixture of said dinucleotides is bound, with at least one reaction cycle wherein a mononucleotide is bound, and that in a preferred embodiment at the end of the n cycles required for a codon synthesis, the supports are mixed and then redivided into one or more reaction containers. The resulting polynucleotides are such that, for the random sequence part, each trinucleotide unit is fit to match only a limited number of codons, predefined for each unity in number and sequence, and the genetic code degeneracy effects can thus be eliminated. FIG.
    Type: Grant
    Filed: April 27, 2000
    Date of Patent: February 26, 2002
    Assignee: Istituto di Ricerche di Molecolare P. Angeletti S.p.A.
    Inventor: Philippe Neuner
  • Patent number: 6316184
    Abstract: There is provided a method for convenient judgement of a possibility of the onset of leukemia of an ovine individual caused by the bovine leukemia virus (BLV) by means of genetic engineering techniques. A method for judging a possibility of the onset of ovine leukemia caused by bovine leukemia virus (BLV), wherein an ovine individual, in which an amino acid sequence defined by the amino acid numbers of 70 and 71 of the &bgr;1 domain of the ovine MHC Class II DR&bgr; chain is Ser-Arg or Gln-Thr, is judged to have a risk of the onset of the leukemia, or an ovine individual, in which the amino acid sequence is Arg-Lys, is judged to have resistance to the onset of the leukemia.
    Type: Grant
    Filed: October 21, 1999
    Date of Patent: November 13, 2001
    Assignee: Riken
    Inventor: Yoko Aida
  • Patent number: 6310197
    Abstract: The present invention is directed to a DNA element that enhances the translation of the human amyloid precursor protein (APP) gene. The enhancer may be incorporated into expression vectors to enhance recombinant protein production. In addition, the invention is directed to an assay that utilizes vectors containing the translation enhancer element for the purpose of identifying agents that modulate the expression of the human amyloid precursor protein. These agents will ultimately be used to suppress APP expression in patients with Alzheimer's disease.
    Type: Grant
    Filed: November 9, 1998
    Date of Patent: October 30, 2001
    Assignee: The Brigham and Women's Hospital, Inc.
    Inventor: Jack Rogers
  • Publication number: 20010031486
    Abstract: The present invention is directed to a modified glutamine PRPP amidotransferase and a method of using that modified enzyme to enhance the biosynthesis of purine nucleotides. The modified glutamine PRPP amidotransferase has at least one amino acid of the allosteric A sites or the catalytic C sites of said amidotransferase substituted with a non-native amino acid, wherein the substitution reduces the sensitivity of the enzyme to end product inhibition relative to the native glutamine PRPP amidotransferase enzyme.
    Type: Application
    Filed: March 13, 2001
    Publication date: October 18, 2001
    Inventors: Howard Zalkin, Janet L. Smith, Robert L. Switzer
  • Patent number: 6287819
    Abstract: A process for producing uridine diphosphate-N-acetylglucosamine (UDPAG) from uridylic acid (UMP) and N-acetylglucosamine by use of microorganism cells, characterized by adding N-acetylglucosamine kinase thereto. According to the present invention, UDPAG can be efficiently produced even when N-acetylglucosamine is used as a substrate.
    Type: Grant
    Filed: April 29, 1999
    Date of Patent: September 11, 2001
    Assignee: Yamasa Corporation
    Inventors: Kenji Takenouchi, Kazuya Ishige, Yuichiro Midorikawa, Kiyoshi Okuyama, Tomoki Hamamoto, Toshitada Noguchi
  • Patent number: 6284495
    Abstract: A nucleic acid substance is efficiently produced by cultivating a microorganism whose repressor protein for purine operon does not function in a normal manner, preferably a strain whose gene encoding the repressor protein on a chromosome (purR) is disrupted, in a culture medium so that the nucleic acid substance should accumulate in the culture medium, and collecting the substance from the culture medium.
    Type: Grant
    Filed: June 8, 1999
    Date of Patent: September 4, 2001
    Assignee: Ajinomoto Co., Inc.
    Inventors: Katsuaki Sato, Yoshihiro Usuda
  • Patent number: 6268183
    Abstract: The invention discloses a two-step process for recovery of thuringiensin, comprising adsorbing the thuringiensin from fermentation broth by calcium silicate, and dissociating the thuringiensin by dibasic sodium phosphate. The resulting thuringiensin can be further purified by using semi-preparative HPLC and electrodialysis to remove the excess salts from the recovered thuringiensin solution.
    Type: Grant
    Filed: June 2, 2000
    Date of Patent: July 31, 2001
    Assignee: National Science Council
    Inventors: Yew-Min Tzeng, Bing-Lan Liu, Shyuan-Shuenn Huang, Cheng-Ming Liu, Hung-Yieng Tsun
  • Patent number: 6248568
    Abstract: Propargylethoxyamino nucleosides are disclosed having the structure wherein R1 and R2 are —H, lower alkyl, or label; B is a 7-deazapurine, purine, or pyrimidine nucleoside base; W1 is —H or —OH; W2 is —OH or a moiety which renders the nucleoside incapable of forming a phosphodiester bond at the 3′-position; and W3 is —PO4, —P2O7, —P3O10, phosphate analog, or —OH. Additionaly, a primer extension method is provided employing the above propargylethoxyamino nucleosides.
    Type: Grant
    Filed: June 18, 1998
    Date of Patent: June 19, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Shaheer H. Khan, Steven M. Menchen, Barnett B. Rosenblum
  • Patent number: 6218121
    Abstract: This invention is an integrated instrument for the high-capacity electrophoretic analysis of biopolymer samples. It comprises a specialized high-voltage, electrophoretic module in which the migration lanes are formed between a bottom plate and a plurality of etched grooves in a top plate, the module permitting concurrent separation of 80 or more separate samples. In thermal contact with the bottom plate is a thermal control module incorporating a plurality of Peltier heat transfer devices for the control of temperature and gradients in the electrophoretic medium. Fragments are detected by a transmission imaging spectrograph which simultaneously spatially focuses and spectrally resolves the detection region of all the migration lanes. The spectrograph comprises a transmission dispersion element and a CCD array to detect signals. Signal analysis comprises the steps of noise filtering, comparison in a configuration space with signal prototypes, and selection of the best prototype.
    Type: Grant
    Filed: April 26, 1999
    Date of Patent: April 17, 2001
    Assignee: CuraGen Corporation
    Inventors: John W. Simpson, Jonathan Marc Rothberg, Gregory T. Went
  • Patent number: 6214987
    Abstract: A method for the stepwise creation of phosphodiester bonds between desired nucleosides resulting in the synthesis of polynucleotides having a predetermined nucleotide sequence by preparing an initiation substrate containing a free and unmodified 3′-hydroxyl group; attaching a mononucleotide selected according to the order of the predetermined nucleotide sequence to the 3′-hydroxyl of the initiating substrate in a solution containing a catalytic amount of an enzyme capable of catalyzing the 5′ to 3′ phosphodiester linkage of the 5′-phosphate of the mononucleotide to the 3′-hydroxyl of the initiating substrate, wherein the mononucleotide contains a protected 3′-hydroxyl group, whereby the protected mononucleotide is covalently linked to the initiating substrate and further additions are hindered by the 3′-hydroxyl protecting group. Methods in which a mononucleotide immobilized on a solid support is added to a free polynucleotide chain are also disclosed.
    Type: Grant
    Filed: June 7, 1995
    Date of Patent: April 10, 2001
    Inventors: Andrew C. Hiatt, Floyd Rose
  • Patent number: 6197555
    Abstract: A nucleoside/tide compound having the structure NUC-L-S-LB/LG is described wherein NUC is a nucleoside/tide having a nucleobase portion B, L is a rigid linkage, S is a spacer; and LB/LG is a member of a linkage pair or a label. NUC is attached to L through B such that when B is a purine, L is attached to the 8-position of the purine, when B is 7-deazapurine, L is attached to the 7-position of the 7-deazapurine, and when B is pyrimidine, L is attached to the 5-position of the pyrimidine. In an important aspect of the invention, L has the structure wherein each of n, o and p are integers ranging from 0 to 3, and the sum of n, o and p is at least 2, and each of W, X, Y and Z is selected from the group consisting of carbon and nitrogen. The invention further includes polynucleotide compounds comprising the nucleoside/tide, and primer extension methods utilizing the nucleoside/tide, particularly when used in combination with certain mutant polymerase enzymes.
    Type: Grant
    Filed: December 14, 1999
    Date of Patent: March 6, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Shaheer H. Khan, Barnett B. Rosenblum, Weiguo Zhen, Steven M. Menchen
  • Patent number: 6147211
    Abstract: The invention relates to a compound of formula (I) ##STR1## Wherein: B is adenine, guanine or hypoxanthineZ is hydrogen or a negative chargeR is --[CH.sub.2 CH(R.sup.1)--O].sub.n -R.sup.2, --CH.sub.2 CH.sub.2 X, in whichR.sup.1 is hydrogen or (C.sub.1 -.sub.6) alkylR.sup.2 is hydrogen or (C.sub.1 -.sub.6) alkyln is a number from 1 to 6X is OH, F, NR.sup.3 R.sup.4R.sup.3 and R.sup.4 are independently from each other hydrogen or (C.sub.1 -.sub.6) alkyland to methods of enzymatically treating these compounds with biocatalysts having cyclic phosphodiesterase activity.
    Type: Grant
    Filed: October 6, 1998
    Date of Patent: November 14, 2000
    Assignee: Novartis AG
    Inventors: Oreste Ghisalba, Guy Joel Christian Marais, Pierre Martin
  • Patent number: 6127152
    Abstract: There is disclosed a process for producing a nucleoside derivative of the formula [I]: ##STR1## characterized by contacting 2',3',5'-O-triacylribonucleoside derivative of the formula [II]: ##STR2## with an ester hydrolase: (i) capable of regio-selectively deacylating the acyl group at 5'-O-position in the formula [II] above, and(ii) having an amino acid sequence encoded by a gene which hybridizes to a nucleotide sequence encoding an amino acid sequence of SEQ ID NO:1.
    Type: Grant
    Filed: July 30, 1998
    Date of Patent: October 3, 2000
    Assignee: Sumitomo Chemical Company, Limited
    Inventors: Hiromichi Ohta, Takeshi Sugai, Takeshi Ishii, Satoshi Mitsuda
  • Patent number: 6087132
    Abstract: The invention relates to a multifunctional nucleoside didesoxyribosyl or nucleoside deoxyribosyl transferase which has one or more of the following additional activities (desoxy) nucleoside kinase, nucleoside reductase desaminase, or DNA polymerase activity. Utilizing the multifunctional enzyme results in a variety of nucleic acid products. These products can be prepared using sequential reactions in a single batch process wherein the sequential reaction can be caused to occur by varying process conditions in a manner which turns on or off the requisite activities causing the sequential reactions to occur. An example of a product prepared in this manner is dideoxyribofuranoside triphosphate. Certain of the resultant products have pharmaceutical activities, e.g. antiviral agents. Lactobacillus leichmannii (DSM 20076) is a source of the multifunctional nucleoside deoxyribosyl transferase.
    Type: Grant
    Filed: June 6, 1995
    Date of Patent: July 11, 2000
    Inventor: Roxana Vasiloiu
  • Patent number: 6069229
    Abstract: Nucleic acids encoding various proteases, from a mammal, reagents related thereto, including specific antibodies, and purified proteins are described. Methods of using said reagents and related diagnostic kits are also provided.
    Type: Grant
    Filed: March 7, 1997
    Date of Patent: May 30, 2000
    Assignee: Schering Corporation
    Inventors: Lynette M. Dowling, Constance F. Huffine, Daniel M. Gorman
  • Patent number: 6043060
    Abstract: An oligonucleotide analog or an antisense molecule, which is minimally hydrolyzable with an enzyme in vivo, has a high sense strand binding ability, and is easily synthesized, is provided. It is an oligo- or polynucleotide analog containing one or more monomer units being nucleotide analogs of the general formula: ##STR1## where B may be identical or different, and is a pyrimidine or purine nucleic acid base, or a derivative thereof.
    Type: Grant
    Filed: May 18, 1999
    Date of Patent: March 28, 2000
    Inventor: Takeshi Imanishi
  • Patent number: 6040158
    Abstract: A process for preparing a sugar nucleotide from a nucleotide by using a yeast cell, characterized in that both a nucleoside diphosphate-sugar pyrophosphorylase and a sugar 1-phosphate are present in the reaction system. According to this process, various sugar nucleotides, which have been prepared only in low productivity by the conventional yeast cell process, can be efficiently prepared.
    Type: Grant
    Filed: May 5, 1998
    Date of Patent: March 21, 2000
    Assignee: Yamasa Corporation
    Inventors: Kenji Takenouchi, Tomoki Hamamoto, Toshitada Noguchi
  • Patent number: 6025505
    Abstract: A class of 4,7-dichlororhodamine compounds useful as fluorescent dyes are disclosed having the structure ##STR1## wherein R.sub.1 -R.sub.6 are hydrogen, fluorine, chlorine, lower alkyl, lower alkene, lower alkyne, sulfonate, sulfone, amino, amido, nitrile, lower alkoxy, linking group, or combinations thereof, or, when taken together, R.sub.1 and R.sub.6 is benzo, or, when taken together, R.sub.4 and R.sub.5 is benzo; Y.sub.1 -Y.sub.4 are hydrogen or lower alkyl, or, when taken together, Y.sub.1 and R.sub.2, Y.sub.2 and R.sub.1 Y.sub.3 and R.sub.3, or Y.sub.4 and R.sub.4 is propano, ethano, or substituted forms thereof, and X.sub.1 -X.sub.3 taken separately are selected from the group consisting of hydrogen, chlorine, fluorine, lower alkyl, carboxylate, sulfonic acid, --CH.sub.2 OH, and linking group. In another aspect, the invention includes reagents labeled with the 4,7-dichlororhodamine dye compounds, including deoxynucleotides, dideoxynucleotides, and polynucleotides.
    Type: Grant
    Filed: March 10, 1998
    Date of Patent: February 15, 2000
    Assignee: The Perkin-Elmer Corporation
    Inventors: Linda G. Lee, Scott C. Benson, Barnett B. Rosenblum, Sandra L. Spurgeon, Jonathan M. Cassel, Ronald J. Graham
  • Patent number: 6022713
    Abstract: The present invention relates to a process for producing nucleoside 5'-triphosphates (NTP) from nucleoside 5'-diphosphates (NDP) other than adenosine 5'-diphosphate (ADP), characterized by using a polyphosphate kinase as an enzyme and polyphosphate as the phosphate donor; and application of this process to various glycosylation reactions.This process makes it possible to conveniently and economically synthesize NTP from NDP enzymatically. Also, it becomes possible thereby to economically recycle and synthesize sugar nucleotides and synthesize, for example, oligosaccharides associating therewith without resort to expensive phosphoenol pyruvate, ATP, etc. in the reactions for reproducing or converting NDP into NTP in the systems for enzymatically synthesizing oligosaccharides by combining, for example, with the synthesis of sugar nucleotides.
    Type: Grant
    Filed: July 15, 1998
    Date of Patent: February 8, 2000
    Assignee: Yamasa Corporation
    Inventors: Toshitada Noguchi, Toshikazu Shiba
  • Patent number: 5968783
    Abstract: The present invention relates to a process for preparing sugar nucleotides from nucleotides and sugar derivatives by the use of yeast, characterized in that the reactions are conducted at 20.degree. C. or below. According to this process, even when the preparation is conducted on an enlarged scale, a reduction in the yield of a sugar nucleotide can be inhibited by a very simple means; lowering the reaction temperature 20.degree. C. or below. Thus, the process is an extremely practical one applicable to the mass-production of sugar nucleotides.
    Type: Grant
    Filed: March 16, 1998
    Date of Patent: October 19, 1999
    Assignee: Yamasa Corporation
    Inventors: Kazuya Ishige, Kenji Takenouchi
  • Patent number: 5968787
    Abstract: This invention relates to a process for the production of fructose 2,6-bisphosphate which comprises effecting reactions among (i) fructose 6-phosphate, (ii) glucose, (iii) fructose or (iv) glucose 6-phosphate, ATP and a phosphate donor, in the presence of (i) fructose 6-phosphate 2-kinase (PFK 2) and an enzyme which converts ADP into ATP (ADP/ATP converting enzyme), (ii) PFK 2, an ADP/ATP converting enzyme, hexokinase or glucokinase and glucose 6-phosphate isomerase, (iii) PFK 2, an ADP/ATP converting enzyme and hexokinase or glucokinase, or (iv) PFK 2, an ADP/ATP converting enzyme and glucose 6-phosphate isomerase; to a process for the production of fructose 2,6-bisphosphate which comprises allowing diesterase to coexist in a solution containing fructose 1,2-cyclic, 6-bisphosphate; and to a process for the purification of fructose 2,6-bisphosphate which comprises adding zinc salt to a solution containing fructose 2,6-bisphosphate, removing formed precipitate of impurities and adding a zinc salt to the result
    Type: Grant
    Filed: November 27, 1995
    Date of Patent: October 19, 1999
    Assignee: Unitika Ltd.
    Inventors: Ken Iwata, Tatsuo Katayama, Hiroshi Nakajima
  • Patent number: 5968729
    Abstract: A method is provided using centrifugation to prepare a seal of solidified wax, grease or polymer mix over an aqueous reagent in a reaction container such that the reagent is separated from contact with the atmosphere. The amount of solidified wax, grease or polymer mix is not sufficient when melted to a liquid to separate the reagent from contact with the atmosphere under gravity. A reagent and solidified wax, grease or polymer mix are combined in a container. During centrifugation and heating, the solidified wax, grease or polymer mix melts to a liquid, and centrifuging causes the liquid to form over the reagent a layer that completely separates the reagent from the atmosphere. As centrifugation continues, the liquid is cooled and solidified to form the seal. Additional reagents are preferably added on top of the seal such that when the container is heated and the seal melted the upper and lower reagents mix for reaction.
    Type: Grant
    Filed: March 28, 1998
    Date of Patent: October 19, 1999
    Inventors: Kenneth M. Kosak, Matthew K. Kosak
  • Patent number: 5955323
    Abstract: This invention relates to a fermentation process for high-yield production of plasmid DNA in E coli strains. In the disclosed process, a slow growth rate of cells is controlled and maintained by an automated nutrient feed scheme based on dissolved oxygen concentration (DOC) and pH. This controlled slow growth rate promotes high plasmid DNA stability during host cell replication. As a result, high yield production of plasmid DNA is achieved.
    Type: Grant
    Filed: August 1, 1996
    Date of Patent: September 21, 1999
    Assignee: American Home Products Corporation
    Inventor: Wei Chen