Pamela J Focia

Summary

Affiliation: Northwestern University
Country: USA

Publications

  1. pmc Structure of a GDP:AlF4 complex of the SRP GTPases Ffh and FtsY, and identification of a peripheral nucleotide interaction site
    Pamela J Focia
    Department of Molecular Pharmacology and Biological Chemistry, Feinberg School of Medicine, Northwestern University, 303 E Chicago Ave, Chicago, IL 60611, USA
    J Mol Biol 360:631-43. 2006
  2. pmc X-ray structure of the T. aquaticus FtsY:GDP complex suggests functional roles for the C-terminal helix of the SRP GTPases
    Joseph Gawronski-Salerno
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, Chicago, Illinois 60611, USA
    Proteins 66:984-95. 2007
  3. pmc Heterodimeric GTPase core of the SRP targeting complex
    Pamela J Focia
    Department of Molecular Pharmacology and Biological Chemistry, Feinberg School of Medicine, Northwestern University, 303 East Chicago Avenue, Chicago, IL 60611, USA
    Science 303:373-7. 2004
  4. pmc Novel protein and Mg2+ configurations in the Mg2+GDP complex of the SRP GTPase ffh
    Pamela J Focia
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, 303 E Chicago Avenue, Chicago, Illinois 60611, USA
    Proteins 54:222-30. 2004
  5. pmc Crystallization of the GMPPCP complex of the NG domains of Thermus aquaticus Ffh and FtsY
    Irina V Shepotinovskaya
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, 303 East Chicago Avenue, Chicago, IL 60611, USA
    Acta Crystallogr D Biol Crystallogr 59:1834-7. 2003
  6. pmc Structures of a platelet-derived growth factor/propeptide complex and a platelet-derived growth factor/receptor complex
    Ann Hye Ryong Shim
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, Searle 8 417, 303 East Chicago Avenue, Chicago, IL 60611, USA
    Proc Natl Acad Sci U S A 107:11307-12. 2010
  7. pmc Structural basis for mobility in the 1.1 A crystal structure of the NG domain of Thermus aquaticus Ffh
    Ursula D Ramirez
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, 303 E Chicago Avenue, MC S215, Chicago, IL 60611 3008, USA
    J Mol Biol 320:783-99. 2002
  8. pmc Nucleotide-binding flexibility in ultrahigh-resolution structures of the SRP GTPase Ffh
    Ursula D Ramirez
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University, Chicago, IL 60611, USA
    Acta Crystallogr D Biol Crystallogr 64:1043-53. 2008
  9. pmc Structural basis for stem cell factor-KIT signaling and activation of class III receptor tyrosine kinases
    Heli Liu
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
    EMBO J 26:891-901. 2007
  10. pmc Electron spin-echo envelope modulation (ESEEM) reveals water and phosphate interactions with the KcsA potassium channel
    John A Cieslak
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, 303 East Chicago Avenue, Chicago, Illinois 60611, USA
    Biochemistry 49:1486-94. 2010

Collaborators

  • Peter Walter
  • Geoffrey T Swanson
  • Brian K Shoichet
  • Z Sean Juo
  • Robert Stroud
  • Adrian Gross
  • Ryuichi Sakai
  • Heli Liu
  • Xiaoyan Chen
  • Douglas M Freymann
  • Xiaolin He
  • Ann Hye Ryong Shim
  • Ursula D Ramirez
  • Julian L Klosowiak
  • John A Cieslak
  • Joseph Gawronski-Salerno
  • Michael J Lenaeus
  • Bhutorn Canyuk
  • Federica Morandi
  • Irina V Shepotinovskaya
  • Beth M Beadle
  • Sarah E Rice
  • Srinivas Chakravarthy
  • Eric C Landahl
  • Yuka Nakamura
  • P Charles Lin
  • K Christopher Garcia
  • Ann H R Shim
  • John S Coon
  • Magdalini Vamvouka
  • Mary Anne Wenck
  • Ann E Eakin
  • Francisco J Medrano
  • Sydney P Craig
  • Jesus Blazquez
  • Stefania Morandi
  • Fabio Prati
  • Emilia Caselli
  • George Minasov
  • Indi Trehan
  • Peter Kuhn

Detail Information

Publications20

  1. pmc Structure of a GDP:AlF4 complex of the SRP GTPases Ffh and FtsY, and identification of a peripheral nucleotide interaction site
    Pamela J Focia
    Department of Molecular Pharmacology and Biological Chemistry, Feinberg School of Medicine, Northwestern University, 303 E Chicago Ave, Chicago, IL 60611, USA
    J Mol Biol 360:631-43. 2006
    ..This site exhibits conserved sequence and structural features that suggest a direct interaction with RNA plays a role in regulating the activity of the SRP targeting complex...
  2. pmc X-ray structure of the T. aquaticus FtsY:GDP complex suggests functional roles for the C-terminal helix of the SRP GTPases
    Joseph Gawronski-Salerno
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, Chicago, Illinois 60611, USA
    Proteins 66:984-95. 2007
    ..aquaticus FtsY together behave as a rigid body during assembly, suggesting distinct mechanisms by which the interactions of the NG domain "module" are regulated in the context of the two SRP GTPases...
  3. pmc Heterodimeric GTPase core of the SRP targeting complex
    Pamela J Focia
    Department of Molecular Pharmacology and Biological Chemistry, Feinberg School of Medicine, Northwestern University, 303 East Chicago Avenue, Chicago, IL 60611, USA
    Science 303:373-7. 2004
    ..We propose that the complex represents a molecular "latch" and that its disengagement is regulated by completion of assembly of the GTPase active site...
  4. pmc Novel protein and Mg2+ configurations in the Mg2+GDP complex of the SRP GTPase ffh
    Pamela J Focia
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, 303 E Chicago Avenue, Chicago, Illinois 60611, USA
    Proteins 54:222-30. 2004
    ..The available structures of the GDP-bound protein provide a series of structural snapshots that illuminate steps along the pathway of GDP release following GTP hydrolysis...
  5. pmc Crystallization of the GMPPCP complex of the NG domains of Thermus aquaticus Ffh and FtsY
    Irina V Shepotinovskaya
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, 303 East Chicago Avenue, Chicago, IL 60611, USA
    Acta Crystallogr D Biol Crystallogr 59:1834-7. 2003
    ..It has been demonstrated that all forms of the crystals observed contain an intact complex. Diffraction data to 2.0 A resolution have been measured...
  6. pmc Structures of a platelet-derived growth factor/propeptide complex and a platelet-derived growth factor/receptor complex
    Ann Hye Ryong Shim
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, Searle 8 417, 303 East Chicago Avenue, Chicago, IL 60611, USA
    Proc Natl Acad Sci U S A 107:11307-12. 2010
    ..The structural and biochemical data together offer insights into PDGF-PDGFR signaling, as well as strategies for PDGF-antagonism...
  7. pmc Structural basis for mobility in the 1.1 A crystal structure of the NG domain of Thermus aquaticus Ffh
    Ursula D Ramirez
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, 303 E Chicago Avenue, MC S215, Chicago, IL 60611 3008, USA
    J Mol Biol 320:783-99. 2002
    ..Our data allows us to propose a structural explanation for the functional significance of sequence elements conserved at the N/G interface...
  8. pmc Nucleotide-binding flexibility in ultrahigh-resolution structures of the SRP GTPase Ffh
    Ursula D Ramirez
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University, Chicago, IL 60611, USA
    Acta Crystallogr D Biol Crystallogr 64:1043-53. 2008
    ..However, ;loose' binding may have biological significance in promoting facile nucleotide exchange and providing a mechanism for priming the SRP GTPase prior to its activation in its complex with the SRP receptor...
  9. pmc Structural basis for stem cell factor-KIT signaling and activation of class III receptor tyrosine kinases
    Heli Liu
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
    EMBO J 26:891-901. 2007
    ..It serves as a framework for understanding the activation mechanisms of class III RTKs...
  10. pmc Electron spin-echo envelope modulation (ESEEM) reveals water and phosphate interactions with the KcsA potassium channel
    John A Cieslak
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, 303 East Chicago Avenue, Chicago, Illinois 60611, USA
    Biochemistry 49:1486-94. 2010
    ..The results presented here establish ESEEM as a highly informative technique for SDSL studies of membrane proteins...
  11. pmc Structural basis for synaptic adhesion mediated by neuroligin-neurexin interactions
    Xiaoyan Chen
    Northwestern University Feinberg School of Medicine, Department of Molecular Pharmacology and Biological Chemistry, Searle 8 417, 303 East Chicago Avenue, Chicago, Illinois 60611, USA
    Nat Struct Mol Biol 15:50-6. 2008
    ..Mapping neuroligin mutations implicated in autism indicated that most such mutations are structurally destabilizing, supporting deficient neuroligin biosynthesis and processing as a common cause for this brain disorder...
  12. pmc Structural basis of semaphorin-plexin recognition and viral mimicry from Sema7A and A39R complexes with PlexinC1
    Heli Liu
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
    Cell 142:749-61. 2010
    ..The complex structures support a conserved Semaphorin-Plexin recognition mode and suggest that Plexins are activated by dimerization...
  13. pmc Structure of macrophage colony stimulating factor bound to FMS: diverse signaling assemblies of class III receptor tyrosine kinases
    Xiaoyan Chen
    Department of Molecular Pharmacology and Biological Chemistry, Feinberg School of Medicine, Searle 8 417, Northwestern University, 303 East Chicago Avenue, Chicago, IL 60611, USA
    Proc Natl Acad Sci U S A 105:18267-72. 2008
    ..Hence, the formation of signaling class III RTK complexes can be diverse, engaging various modes of ligand recognition and various mechanistic steps for dimerizing and activating receptors...
  14. pmc Homophilic adhesion mechanism of neurofascin, a member of the L1 family of neural cell adhesion molecules
    Heli Liu
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Feinberg School of Medicine, Chicago, Illinois 60611, USA
    J Biol Chem 286:797-805. 2011
    ..Our structures reveal a conserved homophilic adhesion mode for the L1 family and also shed light on how the pathological mutations of L1 affect its structure and function...
  15. ncbi request reprint Structural basis of TEA blockade in a model potassium channel
    Michael J Lenaeus
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University Medical School, 303 East Chicago Avenue, Chicago, Illinois 60611, USA
    Nat Struct Mol Biol 12:454-9. 2005
    ..We propose that TEA blocks potassium channels by acting as a potassium analog at the dehydration transition step during permeation...
  16. pmc Structure of a tetrameric galectin from Cinachyrella sp. (ball sponge)
    Douglas M Freymann
    Molecular Pharmacology and Biological Chemistry, Feinberg School of Medicine, Northwestern University, Chicago, IL 60611, USA
    Acta Crystallogr D Biol Crystallogr 68:1163-74. 2012
    ..Twofold symmetry between binding-site pairs provides a basis for a model for interaction with ionotropic glutamate receptors...
  17. ncbi request reprint Structural milestones in the reaction pathway of an amide hydrolase: substrate, acyl, and product complexes of cephalothin with AmpC beta-lactamase
    Beth M Beadle
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University, Chicago, Illinois 60611, USA
    Structure 10:413-24. 2002
    ..These structures correspond to all three intermediates along the reaction path and provide insight into substrate recognition, catalysis, and product expulsion...
  18. pmc Structural coupling of the EF hand and C-terminal GTPase domains in the mitochondrial protein Miro
    Julian L Klosowiak
    Department of Cell and Molecular Biology, Feinberg School of Medicine, Northwestern University, 303 East Chicago Avenue, Chicago, Illinois 60611, USA
    EMBO Rep 14:968-74. 2013
    ..Our results indicate structural mechanisms for calcium, nucleotide and phosphorylation-dependent regulation of mitochondrial function by Miro. ..
  19. ncbi request reprint Nanomolar inhibitors of AmpC beta-lactamase
    Federica Morandi
    Department of Pharmaceutical Chemistry, University of California, San Francisco, Mission Bay Genentech Hall, 600 16th Street, Mail Box 2240, 94143, USA
    J Am Chem Soc 125:685-95. 2003
    ..This inhibitor reversed the resistance of clinical pathogens to the third generation cephalosporin ceftazidime; it may serve as a lead compound for drug discovery to combat bacterial resistance to beta-lactam antibiotics...
  20. ncbi request reprint Interactions at the dimer interface influence the relative efficiencies for purine nucleotide synthesis and pyrophosphorolysis in a phosphoribosyltransferase
    Bhutorn Canyuk
    University of North Carolina School of Pharmacy, Chapel Hill, NC 27599, USA
    J Mol Biol 335:905-21. 2004
    ....