Patents Examined by Charles L. Patterson, Jr.
  • Patent number: 7247464
    Abstract: A novel restriction endonuclease has been identified from Citrobacter species 2144 (NEB#1398) which can cleave at nt sequence 5?-CAANNNNNGTGG-3? (SEQ ID NO:13) in double-stranded DNA molecules.
    Type: Grant
    Filed: March 23, 2005
    Date of Patent: July 24, 2007
    Assignee: New England Biolabs, Inc.
    Inventors: Richard Morgan, Celine Nguefeu Nkenfou
  • Patent number: 7238507
    Abstract: The present invention relates to a novel cytochrome P450-like enzyme (Aspergillus ochraceus 11 alpha hydroxylase) and an oxidoreductase (Aspergillus ochraceus oxidoreductase) isolated from cDNA library generated from the mRNA of Aspergillus ochraceus spores. When the cDNA encoding the 11 alpha hydroxylase was co-expressed in Spodoptera frugiperda (Sf-9) insect cells with the cDNA encoding human oxidoreductase as an electron donor, it successfully catalyzed the conversion of the steroid substrate 4-androstene-3,17-dione (AD) to 11 alpha-hydroxy-AD as determined by HPLC analysis. The invention also relates to nucleic acid molecules associated with or derived from these cDNAs including complements, homologues and fragments thereof, and methods of using these nucleic acid molecules, to generate, for example, polypeptides and fragments thereof. The invention also relates to the generation of antibodies that recognizes the A.
    Type: Grant
    Filed: July 28, 2004
    Date of Patent: July 3, 2007
    Assignee: Pharmacia Corporation
    Inventors: Suzanne L. Bolten, Robert A. Clayton, Alan M. Easton, Leslie C. Engel, Dean M. Messing, John S. Ng, Beverly Reitz, Mark C. Walker, Ping T. Wang
  • Patent number: 7229804
    Abstract: The gene encoding a 4-hydroxybutyryl-CoA transferase has been isolated from bacteria and integrated into the genome of bacteria also expressing a polyhydroxyalkanoate synthase, to yield an improved production process for 4HB-containing polyhydroxyalkanoates using transgenic organisms, including both bacteria and plants. The new pathways provide means for producing 4HB containing PHAs from cheap carbon sources such as sugars and fatty acids, in high yields, which are stable. Useful strains are obtaining by screening strains having integrated into their genomes a gene encoding a 4HB-CoA transferase and/or PHA synthase, for polymer production. Processes for polymer production use recombinant systems that can utilize cheap substrates. Systems are provided which can utilize amino acid degradation pathways, ?-ketoglutarate, or succinate as substrate.
    Type: Grant
    Filed: October 7, 2005
    Date of Patent: June 12, 2007
    Assignee: Metabolix, Inc.
    Inventors: Gjalt W. Huisman, Frank A. Skraly, David P. Martin, Oliver P. Peoples
  • Patent number: 7205136
    Abstract: A method for increasing the rate of chemical reactions involving the conversion of at least one reactant to at least one product involves contacting the reactant with an appropriate monoclonal antibody under conditions permitting the formation of a complex between the antibody and the reactant. The complexed reactant is converted to the product which is then released from the complex. The monoclonal antibody may employ a cofactor and may be directed to a known substrate of an enzyme. Methods for preparing such monoclonal antibodies are also disclosed.
    Type: Grant
    Filed: May 23, 1995
    Date of Patent: April 17, 2007
    Assignee: Wellstat BioCatalysis, LLC.
    Inventors: Gerald Schochetman, Richard J. Massey
  • Patent number: 7189503
    Abstract: The invention relates to a method for detecting a double-stranded region in a nucleic acid by (1) providing two separate, adjacent pools of a medium and a interface between the two pools, the interface having a channel so dimensioned as to allow sequential monomer-by-monomer passage of a single-stranded nucleic acid, but not of a double-stranded nucleic acid, from one pool to the other pool; (2) placing a nucleic acid polymer in one of the two pools; and (3) taking measurements as each of the nucleotide monomers of the single-stranded nucleic acid polymer passes through the channel so as to differentiate between nucleotide monomers that are hybridized to another nucleotide monomer before entering the channel and nucleotide monomers that are not hybridized to another nucleotide monomer before entering the channel.
    Type: Grant
    Filed: December 18, 2003
    Date of Patent: March 13, 2007
    Assignees: President and Fellows of Harvard College, Regents of the University of California
    Inventors: Mark Akeson, Daniel Branton, George Church, David W. Deamer
  • Patent number: 7189547
    Abstract: Th invention is directed to nucleic acid sequences which encode polypeptides having PhzO activity, namely, the ability to convert phenazine-1-carboxylic acid to a 2-hydroxylated phenazine, and isolated polypeptides having this activity. The invention is also directed to recombinant nucleic acid molecules, vectors, and host cells including the nucleic acid sequences as well as methods for producing and using the polypeptides, including expression in bacterial or plant cells to inhibit fungal pathogens.
    Type: Grant
    Filed: March 26, 2004
    Date of Patent: March 13, 2007
    Assignees: The United States of America as represented by the Secretary of Agriculture, Washington State University Research Foundation
    Inventors: Linda S. Thomashow, Shannon M. Delaney, Dmitri V. Mavrodi, David M. Weller
  • Patent number: 7186538
    Abstract: In accordance with the present invention, there is provided a novel type II restriction endonuclease, obtainable from Corynebacterium striatum M82B, hereinafter referred to as “CstMI”, which endonuclease: (1) recognizes the nucleotide sequence 5?-AAGGAG-3? in a double-stranded DNA molecule as shown below, 5?-AAGGAGN20?-3? 3?-TTCCTCN18?-5? (wherein G represents guanine, C represents cytosine, A represents adenine, T represents thymine and N represents either G, C, A, or T); (2) cleaves said sequence at the phosphodiester bonds between the 20th and the 21th nucleotides 3? to the recognition sequence in the 5?-AAGGAG-3 strand of the DNA, and between the 18th and 19th nucleotides 5? to the recognition sequence in the complement stand, 5?-CTCCTT-3?, to produce a 2 base 3?extension; and (3) possesses a second enzymatic activity that recognizes the same DNA sequence, 5?-AAGGAG-3?, but modifies this sequence by the addition of a methyl group to prevent cleavage by the CstMI endon
    Type: Grant
    Filed: July 10, 2003
    Date of Patent: March 6, 2007
    Assignee: New England Biolabs, Inc.
    Inventors: Richard D. Morgan, Tanya Bhatia
  • Patent number: 7169596
    Abstract: This invention provides a novel isolated polynucleotide sequence, called ADARP1 (adenosine deaminase related protein 1), that displays significant homology to the adenosine deaminase (ADA) gene. Also provided is the amino acid sequence of the ADARP1 polypeptide encoded by the polynucleotide of the invention. The RNA for this novel gene is found in variety of tissues, with higher levels observed in the heart, testes, and skeletal muscle compared with others tested. Based on amino acid sequence homology, the ADARP1 protein will likely display the catalytic activity characteristic of ADA. This newly found ADARP1 gene and its encoded product may be useful in the treatment of immunodeficiencies, including severe combined immunodeficiency disease (SCID) and other ADA deficiencies, treatment of male reproductive disorders, testicular disorders and musclo-skeletal disorders.
    Type: Grant
    Filed: December 17, 2003
    Date of Patent: January 30, 2007
    Assignee: Bristol-Meyers Squibb Company
    Inventors: Chandra S. Ramanathan, Gabe Mintier
  • Patent number: 7150982
    Abstract: The present invention provides novel cleavage agents and polymerases for the cleavage and modification of nucleic acid. The cleavage agents and polymerases find use, for example, for the detection and characterization of nucleic acid sequences and variations in nucleic acid sequences. In some embodiments, the 5? nuclease activity of a variety of enzymes is used to cleave a target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Grant
    Filed: February 26, 2002
    Date of Patent: December 19, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: Hatim T. Allawi, Brad T. Argue, Christian Tor Bartholomay, LuAnne Chehak, Michelle L. Curtis, Peggy S. Eis, Jeff G. Hall, Hon S. Ip, Lin Ji, Michael W. Kaiser, Robert W. Kwiatkowski, Andrew A. Lukowiak, Victor Lyamichev, Natalie E. Lyamicheva, WuPo Ma, Bruce P. Neri, Sarah M. Olson, Marilyn C. Olson-Munoz, James J. Schaefer, Zbigniev Skrzypczynski, Tsetska Y. Takova, Lisa C. Thompson, Kevin L. Vedvik
  • Patent number: 7148331
    Abstract: The present invention provides amino acid sequences of polypeptides that are encoded by genes within the human genome, the dehydrogenase polypeptides of the present invention. The present invention specifically provides isolated polypeptide and nucleic acid molecules, methods of identifying orthologs and paralogs of the dehydrogenase polypeptides, and methods of identifying modulators of the dehydrogenase polypeptides.
    Type: Grant
    Filed: August 25, 2004
    Date of Patent: December 12, 2006
    Assignee: Applera Corporation
    Inventors: Fangcheng Gong, Chunhua Yan, Valentina DiFrancesco, Ellen M. Beasley
  • Patent number: 7138499
    Abstract: The present invention provides amino acid sequences of peptides that are encoded by genes within the human genome, the proteins of the present invention. The present invention specifically provides isolated peptide and nucleic acid molecules, methods of identifying orthologs and paralogs of the proteins of the present invention, and methods of identifying modulators of the proteins of the present invention.
    Type: Grant
    Filed: April 19, 2005
    Date of Patent: November 21, 2006
    Assignee: Applera Corporation
    Inventors: Trevor Woodage, Ming-Hui Wei, Chinnappa Kodira, Valentina Di Francesco, Ellen M Beasley
  • Patent number: 7135324
    Abstract: A Herpes simplex virus (HSV) recombinase comprises a purified or isolated alkaline nuclease and a single stranded DNA binding protein. In HSV-1, the alkaline nuclease is the UL12 protein and the single stranded DNA binding protein is the ICP8 protein. The HSV recombinase can be purified from an in vitro expression system or can be expressed in an appropriate vector or vectors wherein the DNAs encoding the polypeptides are operatively linked to expression control sequences. Methods of use of the HSV recombinase include cloning, treating cells and organisms, and producing transgenic animals. The HSV recombinase can be in the form of a kit useful for cloning.
    Type: Grant
    Filed: September 4, 2003
    Date of Patent: November 14, 2006
    Assignee: The University of Connecticut
    Inventors: Sandra Weller, Richard S. Myers, Nina Bacher Reuven
  • Patent number: 7135322
    Abstract: The present invention provides methods of producing a pro-N-acetylglucosamine-1-phosphodiester?N-acetyl glucosimanidase (phosphodiester ?-GlcNAcase), in mammalian cells deficient in the furin proteolytic enzyme and methods of making lysosomal bydrolases having an N-acetylglucosamine-1-phosphate.
    Type: Grant
    Filed: July 29, 2004
    Date of Patent: November 14, 2006
    Assignee: Novazyme Pharmaceuticals, Inc.
    Inventors: William Canfield, Stuart Kornfeld
  • Patent number: 7132270
    Abstract: The present invention relates to improved variants of soluble pyrroloquinoline quinone (PQQ)-dependent glucose dehydrogenases (s-GDH), to genes encoding mutated s-GDH, to mutant proteins of s-GDH with improved substrate specificity for glucose, and to different applications of these s-GDH variants, particularly for determining concentrations of sugar, especially of glucose in a sample.
    Type: Grant
    Filed: December 13, 2002
    Date of Patent: November 7, 2006
    Assignee: Roche Diagnostics GmbH
    Inventors: Peter Kratzsch, Rainer Schmuck, Daniela Beck, Zhixin Shao, Detlef Thym, Wolfgang-Reinhold Knappe
  • Patent number: 7129088
    Abstract: This invention relates to an isolated nucleic acid fragment encoding a protein involved in phenylpropanoid metabolism. The invention also relates to the construction of a chimeric gene encoding all or a portion of the protein involved in phenylpropanoid metabolism, in sense or antisense orientation, wherein expression of the chimeric gene results in production of altered levels of the protein involved in phenylpropanoid metabolism in a transformed host cell.
    Type: Grant
    Filed: June 17, 2003
    Date of Patent: October 31, 2006
    Assignee: E. I. du Pont de Nemours and Company
    Inventors: Rebecca E. Cahoon, J. Antoni Rafalski
  • Patent number: 7129075
    Abstract: The present invention relates to the isolation and characterization of CEL I and CEL II endonuclease proteins. Methods and kits for identifying mismatches in double-stranded DNA are also provided.
    Type: Grant
    Filed: October 17, 2003
    Date of Patent: October 31, 2006
    Assignee: Transgenomic, Inc.
    Inventors: Gary F. Gerard, Harini Shandilya, Peter Qiu, James M. D'Alessio
  • Patent number: 7122364
    Abstract: The present invention provides novel cleavage agents and polymerases for the cleavage and modification of nucleic acid. The cleavage agents and polymerases find use, for example, for the detection and characterization of nucleic acid sequences and variations in nucleic acid sequences. In some embodiments, the 5? nuclease activity of a variety of enzymes is used to cleave a target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof.
    Type: Grant
    Filed: November 17, 2000
    Date of Patent: October 17, 2006
    Assignee: Third Wave Technologies, Inc.
    Inventors: Victor I. Lyamichev, Michael W. Kaiser, Natasha Lyamicheva
  • Patent number: 7118901
    Abstract: A method is provided for the production of a bovine pancreatic protein with a specific desoxyribonuclease activity of at least 6,000 units per mg of protein. Methylotrophic yeast is used as a heterologous host organism. The bovine pancreatic protein is secreted into the growth medium from which it is purified.
    Type: Grant
    Filed: December 16, 2003
    Date of Patent: October 10, 2006
    Assignee: Roche Diagnostics Operations, Inc.
    Inventors: Bernhard Suppmann, Johann-Peter Thalhofer, Stephanie Ronning, Helmut Schoen, Rainer Müller
  • Patent number: 7115407
    Abstract: In accordance with the present invention, there is provided a DNA (deoxyribonucleic acid) fragment which encodes the MmeI type II restriction endonuclease enzyme. This one polypeptide possesses two related enzymatic functions; namely an endonuclease activity which recognizes the DNA sequence 5?-TCC(Pu)AC-3? and cleaves as indicated by the arrows: 5?-TCCRAC(N20)?-3? 3?-AGGYTG(N18)?-5? and a second enzymatic activity that recognizes the same DNA sequence, 5?-TCC(Pu)AC-3?, but modifies this sequence by the addition of a methyl group to prevent cleavage by the MmeI endonuclease activity.
    Type: Grant
    Filed: July 10, 2003
    Date of Patent: October 3, 2006
    Assignee: New England BioLabs, Inc.
    Inventors: Richard D. Morgan, Tanya Bhatia, Theodore Davis, Lindsay Lovasco
  • Patent number: 7112431
    Abstract: The present invention relates to a 5-substituted hydantoin racemase, which efficiently catalyzes racemization reactions at a high optimum temperature for racemization reactions, DNA coding for the racemase, and processes for producing optically active amino acids.
    Type: Grant
    Filed: June 9, 2004
    Date of Patent: September 26, 2006
    Assignee: Ajinomoto Co. Inc.
    Inventors: Shunichi Suzuki, Norimasa Onishi, Kenzo Yokozeki