PATRICK SWANSON

Summary

Affiliation: Creighton University
Country: USA

Publications

  1. pmc Full-length RAG1 promotes contact with coding and intersignal sequences in RAG protein complexes bound to recombination signals paired in cis
    Sushil Kumar
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, Nebraska 68178, USA
    Nucleic Acids Res 37:2211-26. 2009
  2. pmc Evidence for Ku70/Ku80 association with full-length RAG1
    Prafulla Raval
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, NE 68178, USA
    Nucleic Acids Res 36:2060-72. 2008
  3. pmc N-acetylcysteine increases the frequency of bone marrow pro-B/pre-B cells, but does not reverse cigarette smoking-induced loss of this subset
    Victoria L Palmer
    Department of Medical Microbiology and Immunology, Creighton University School of Medicine, Omaha, Nebraska, United States of America
    PLoS ONE 6:e24804. 2011
  4. pmc HMG-box domain stimulation of RAG1/2 cleavage activity is metal ion dependent
    Aleksei N Kriatchko
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, 2500 California Plaza, Omaha, NE, USA
    BMC Mol Biol 9:32. 2008
  5. pmc HMGB1/2 can target DNA for illegitimate cleavage by the RAG1/2 complex
    Ming Zhang
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, NE, USA
    BMC Mol Biol 10:24. 2009
  6. ncbi request reprint Early steps of V(D)J rearrangement: insights from biochemical studies of RAG-RSS complexes
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, Nebraska 68178, USA
    Adv Exp Med Biol 650:1-15. 2009
  7. pmc The DDE motif in RAG-1 is contributed in trans to a single active site that catalyzes the nicking and transesterification steps of V(D)J recombination
    P C Swanson
    Department of Medical Microbiology and Immunology, Creighton University, School of Medicine, Omaha, Nebraska 68178, USA
    Mol Cell Biol 21:449-58. 2001
  8. pmc Fine structure and activity of discrete RAG-HMG complexes on V(D)J recombination signals
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, Creighton University School of Medicine, Omaha, Nebraska 68178, USA
    Mol Cell Biol 22:1340-51. 2002
  9. ncbi request reprint The bounty of RAGs: recombination signal complexes and reaction outcomes
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, NE 68178, USA
    Immunol Rev 200:90-114. 2004
  10. pmc A RAG-1/RAG-2 tetramer supports 12/23-regulated synapsis, cleavage, and transposition of V(D)J recombination signals
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, School of Medicine, Creighton University, Omaha, Nebraska 68178, USA
    Mol Cell Biol 22:7790-801. 2002

Research Grants

Collaborators

Detail Information

Publications21

  1. pmc Full-length RAG1 promotes contact with coding and intersignal sequences in RAG protein complexes bound to recombination signals paired in cis
    Sushil Kumar
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, Nebraska 68178, USA
    Nucleic Acids Res 37:2211-26. 2009
    ..These results provide new insights into the mechanism of physiological V(D)J recombination...
  2. pmc Evidence for Ku70/Ku80 association with full-length RAG1
    Prafulla Raval
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, NE 68178, USA
    Nucleic Acids Res 36:2060-72. 2008
    ..Here we present evidence that two components of the NHEJ pathway, Ku70 and Ku80, interact with full-length RAG1, providing a biochemical link between the two phases of V(D)J recombination...
  3. pmc N-acetylcysteine increases the frequency of bone marrow pro-B/pre-B cells, but does not reverse cigarette smoking-induced loss of this subset
    Victoria L Palmer
    Department of Medical Microbiology and Immunology, Creighton University School of Medicine, Omaha, Nebraska, United States of America
    PLoS ONE 6:e24804. 2011
    ..Here we determined whether smoke exposure impairs B cell development by inducing cell cycle arrest or apoptosis, and whether NAC treatment prevents smoking-induced loss of developing B cells...
  4. pmc HMG-box domain stimulation of RAG1/2 cleavage activity is metal ion dependent
    Aleksei N Kriatchko
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, 2500 California Plaza, Omaha, NE, USA
    BMC Mol Biol 9:32. 2008
    ..Here we test whether this apparent discrepancy is attributed to the choice of divalent metal ion and the concentration of HMGB1 used in the cleavage reaction...
  5. pmc HMGB1/2 can target DNA for illegitimate cleavage by the RAG1/2 complex
    Ming Zhang
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, NE, USA
    BMC Mol Biol 10:24. 2009
    ....
  6. ncbi request reprint Early steps of V(D)J rearrangement: insights from biochemical studies of RAG-RSS complexes
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, Nebraska 68178, USA
    Adv Exp Med Biol 650:1-15. 2009
    ..In this chapter we will review the molecular mechanisms of RAG synaptic complex assembly and 12/23-regulated RSS cleavage, focusing on recent advances that shed new light on these processes...
  7. pmc The DDE motif in RAG-1 is contributed in trans to a single active site that catalyzes the nicking and transesterification steps of V(D)J recombination
    P C Swanson
    Department of Medical Microbiology and Immunology, Creighton University, School of Medicine, Omaha, Nebraska 68178, USA
    Mol Cell Biol 21:449-58. 2001
    ..The implications of a trans cleavage mode observed in these complexes on the organization of the V(D)J synaptic complex are discussed...
  8. pmc Fine structure and activity of discrete RAG-HMG complexes on V(D)J recombination signals
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, Creighton University School of Medicine, Omaha, Nebraska 68178, USA
    Mol Cell Biol 22:1340-51. 2002
    ..Thus, HMG protein plays the dual role of bringing critical elements of the 23-RSS heptamer into the same phase as the 12-RSS to promote RAG binding and assisting in the catalysis of 23-RSS cleavage...
  9. ncbi request reprint The bounty of RAGs: recombination signal complexes and reaction outcomes
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, NE 68178, USA
    Immunol Rev 200:90-114. 2004
    ..Finally, I discuss alternative DNA transactions mediated by the V(D)J recombinase, the protein-DNA complexes that support them, and factors and forces that control them...
  10. pmc A RAG-1/RAG-2 tetramer supports 12/23-regulated synapsis, cleavage, and transposition of V(D)J recombination signals
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, School of Medicine, Creighton University, Omaha, Nebraska 68178, USA
    Mol Cell Biol 22:7790-801. 2002
    ..Interestingly, the RAG-1/RAG-2 tetramer also supports transposition, but HMG-1 is dispensable for its activity...
  11. ncbi request reprint Full-length RAG-2, and not full-length RAG-1, specifically suppresses RAG-mediated transposition but not hybrid joint formation or disintegration
    Patrick C Swanson
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, Nebraska 68178, USA
    J Biol Chem 279:4034-44. 2004
    ....
  12. ncbi request reprint Both high mobility group (HMG)-boxes and the acidic tail of HMGB1 regulate recombination-activating gene (RAG)-mediated recombination signal synapsis and cleavage in vitro
    Serge Bergeron
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, Nebraska 68178, USA
    J Biol Chem 280:31314-24. 2005
    ..Box A or B mutants fail to promote RAG synaptic complex formation, but this defect is alleviated when the acidic tail is removed from these mutants...
  13. pmc Identification and characterization of a gain-of-function RAG-1 mutant
    Aleksei N Kriatchko
    Dept of Medical Microbiology and Immunology, Creighton University Medical Center, 2500 California Plaza, Omaha, NE 68178, USA
    Mol Cell Biol 26:4712-28. 2006
    ..These data suggest that the E649A RAG-1 mutation may interfere with the RAG proteins' ability to sense 12/23-regulated synapsis...
  14. pmc Molecular mechanism underlying RAG1/RAG2 synaptic complex formation
    Luda S Shlyakhtenko
    Department of Pharmaceutical Sciences, College of Pharmacy, University of Nebraska Medical Center, Omaha, Nebraska 68198, USA
    J Biol Chem 284:20956-65. 2009
    ..The replacement of Mg2+ cations with Ca2+ leads to a dramatic change in protein stoichiometry for all RAG-RSS complexes, suggesting that the cation composition profoundly influences the type of complex assembled...
  15. ncbi request reprint RAG and HMGB1 proteins: purification and biochemical analysis of recombination signal complexes
    Serge Bergeron
    Creighton University, Medical Microbiology and Immunology, Omaha, Nebraska, USA
    Methods Enzymol 408:511-28. 2006
    ..In addition, it details several experimental procedures used in our laboratory to study RAG-RSS complex formation and function in vitro...
  16. doi request reprint V(D)J recombinase binding and cleavage of cryptic recombination signal sequences identified from lymphoid malignancies
    Ming Zhang
    Department of Medical Microbiology and Immunology, Creighton University Medical Center, Omaha, Nebraska 68178, USA
    J Biol Chem 283:6717-27. 2008
    ..In contrast, Hox11 and SCL are nicked but not cleaved efficiently in vitro, and cleavage at other adventitious sites in plasmid substrates may also limit the ability to detect recombination activity at these cRSSs in cell culture...
  17. pmc A biochemically defined system for coding joint formation in V(D)J recombination
    Haihui Lu
    Norris Comprehensive Cancer Center, Room 5428, University of Southern California Keck School of Medicine, 1441 Eastlake Avenue, MC9176, Los Angeles, CA 90089, USA
    Mol Cell 31:485-97. 2008
    ....
  18. ncbi request reprint A non-B-DNA structure at the Bcl-2 major breakpoint region is cleaved by the RAG complex
    Sathees C Raghavan
    Norris Comprehensive Cancer Center, Room 5428, University of Southern California Keck School of Medicine, 1441 Eastlake Ave, MC9176, Los Angeles, California 90033, USA
    Nature 428:88-93. 2004
    ..Hence, a stable non-B-DNA structure in the human genome appears to be the basis for the fragility of the Bcl-2 Mbr, and the RAG complex is able to cleave this structure...
  19. pmc Fluorescence resonance energy transfer analysis of recombination signal sequence configuration in the RAG1/2 synaptic complex
    Mihai Ciubotaru
    Howard Hughes Medical Institute and Department of Immunibiology, Yale University School of Medicine, New Haven, CT 06520 8011, USA
    Mol Cell Biol 27:4745-58. 2007
    ....
  20. pmc Double-strand break formation by the RAG complex at the bcl-2 major breakpoint region and at other non-B DNA structures in vitro
    Sathees C Raghavan
    Norris Comprehensive Cancer Center, Rm 5428, University of Southern California Keck School of Medicine, 1441 Eastlake Ave, MC9176, Los Angeles, California 90033, USA
    Mol Cell Biol 25:5904-19. 2005
    ..Hence, the present study reveals novel insight into a third mechanism of action of RAGs on DNA, besides the standard heptamer/nonamer-mediated cleavage in V(D)J recombination and the in vitro transposase activity...
  21. pmc The structure-specific nicking of small heteroduplexes by the RAG complex: implications for lymphoid chromosomal translocations
    Sathees C Raghavan
    Department of Biochemistry, Indian Institute of Science, Bangalore 560012, India
    DNA Repair (Amst) 6:751-9. 2007
    ..We consider these findings in the context of RAG nicking at non-B DNA structures in lymphoid chromosomal translocations...

Research Grants6

  1. Characterization of V(D)J cleavage and repair complexes
    PATRICK SWANSON; Fiscal Year: 2007
    ..abstract_text> ..
  2. Characterization of V(D)J cleavage and repair complexes
    PATRICK SWANSON; Fiscal Year: 2003
    ..abstract_text> ..
  3. Characterization of V(D)J cleavage and repair complexes
    PATRICK SWANSON; Fiscal Year: 2004
    ..abstract_text> ..
  4. Characterization of V(D)J cleavage and repair complexes
    PATRICK SWANSON; Fiscal Year: 2005
    ..abstract_text> ..
  5. Characterization of V(D)J cleavage and repair complexes
    PATRICK SWANSON; Fiscal Year: 2006
    ..abstract_text> ..