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Barry Stoddard

Research Profile

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Chemicals & Drugs

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Publications

TOP 3
Amanda Nga-Sze Mak; Adam J Bogdanove; Philip Bradley; Barry L Stoddard
TAL effectors: function, structure, engineering and applications.
Gregory K Taylor; Sarah K Baxter; Jordan Jarjour; Abigail R Lambert; Lucas H Petrucci; Barry L Stoddard
LAHEDES: the LAGLIDADG homing endonuclease database and engineering server.
Gregory K Taylor; Barry L Stoddard
Structural, functional and evolutionary relationships between homing endonucleases and proteins from their host organisms.

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All Publications

2013: Amanda Nga-Sze Mak; Adam J Bogdanove; Philip Bradley; Barry L Stoddard
TAL effectors: function, structure, engineering and applications.
Current opinion in structural biology 2013;23(1):93-9.
2012: Gregory K Taylor; Sarah K Baxter; Jordan Jarjour; Abigail R Lambert; Lucas H Petrucci; Barry L Stoddard
LAHEDES: the LAGLIDADG homing endonuclease database and engineering server.
Nucleic acids research 2012;40(Web Server issue):W110-6.
2012: Gregory K Taylor; Barry L Stoddard
Structural, functional and evolutionary relationships between homing endonucleases and proteins from their host organisms.
Nucleic acids research 2012;40(12):5189-200.
2012: Kyle Jacoby; Jordan Jarjour; Michael Metzger; Betty W Shen; Barry L Stoddard; Michael T Certo; Andrew M Scharenberg
Expanding LAGLIDADG endonuclease scaffold diversity by rapidly surveying evolutionary sequence space.
Nucleic acids research 2012;40(11):4954-64.
2012: Sagar D Khare; Yakov Kipnis; Haim Leader; Israel Silman; Yifan Song; Barry L Stoddard; Joel L Sussman; Ryo Takeuchi; Dan S Tawfik; Yacov Ashani; Jasmine L Gallaher; Moshe Goldsmith; Per Greisen; David Baker
Computational redesign of a mononuclear zinc metalloenzyme for organophosphate hydrolysis.
Nature chemical biology 2012;8(3):294-300.
2012: Amanda Nga-Sze Mak; Adam J Bogdanove; Philip Bradley; Raul A Cernadas; Barry L Stoddard
The crystal structure of TAL effector PthXo1 bound to its DNA target.
Science (New York, N.Y.) 2012;335(6069):716-9.
2012: Christopher B Eiben; Firas Khatib; Foldit Players; Zoran Popovic; Betty W Shen; Justin B Siegel; Barry L Stoddard; Jacob B Bale; Seth Cooper; David Baker
Increased Diels-Alderase activity through backbone remodeling guided by Foldit players.
Nature biotechnology 2012;30(2):190-2.
2011: Betty W Shen; Siu-Hong Chan; Derrick Xu; Shuang-Yong Xu; Yu Zheng; Zhenyu Zhu; Barry L Stoddard
Characterization and crystal structure of the type IIG restriction endonuclease RM.BpuSI.
Nucleic acids research 2011;39(18):8223-36.
2011: Ryo Takeuchi; Russell J Dickson; David R Edgell; Gregory B Gloor; Kyle Jacoby; Abigail R Lambert; Amanda Nga-Sze Mak; Andrew M Scharenberg; Barry L Stoddard
Tapping natural reservoirs of homing endonucleases for targeted gene modification.
Proceedings of the National Academy of Sciences of the United States of America 2011;108(32):13077-82.
2011: Michael J Metzger; Audrey McConnell-Smith; Barry L Stoddard; A Dusty Miller
Single-strand nicks induce homologous recombination with less toxicity than double-strand breaks using an AAV vector template.
Nucleic acids research 2011;39(3):926-35.
2011: Barry L Stoddard
Homing endonucleases: from microbial genetic invaders to reagents for targeted DNA modification.
Structure (London, England : 1993) 2011;19(1):7-15.
2010: Amanda Nga-Sze Mak; Abigail R Lambert; Barry L Stoddard
Folding, DNA recognition, and function of GIY-YIG endonucleases: crystal structures of R.Eco29kI.
Structure (London, England : 1993) 2010;18(10):1321-31.
2010: Justin B Siegel; Alexandre Zanghellini; Helena M Lovick; Gert Kiss; Abigail R Lambert; Jennifer L St Clair; Jasmine L Gallaher; Donald Hilvert; Michael H Gelb; Barry L Stoddard; Kendall N Houk; Forrest E Michael; David Baker
Computational design of an enzyme catalyst for a stereoselective bimolecular Diels-Alder reaction.
Science (New York, N.Y.) 2010;329(5989):309-13.
2010: Betty W Shen; Daniel F Heiter; Siu-Hong Chan; Hua Wang; Shuang-Yong Xu; Richard D Morgan; Geoffrey G Wilson; Barry L Stoddard
Unusual target site disruption by the rare-cutting HNH restriction endonuclease PacI.
Structure (London, England : 1993) 2010;18(6):734-43.
2009: Jordan Jarjour; Hoku West-Foyle; Michael T Certo; Christopher G Hubert; Lindsey Doyle; Melissa M Getz; Barry L Stoddard; Andrew M Scharenberg
High-resolution profiling of homing endonuclease binding and catalytic specificity using yeast surface display.
Nucleic acids research 2009;37(20):6871-80.
2009: Summer B Thyme; Jordan Jarjour; Ryo Takeuchi; James J Havranek; Justin Ashworth; Andrew M Scharenberg; Barry L Stoddard; David Baker
Exploitation of binding energy for catalysis and design.
Nature 2009;461(7268):1300-4.
2009: Brett K Kaiser; Matthew C Clifton; Betty W Shen; Barry L Stoddard
The structure of a bacterial DUF199/WhiA protein: domestication of an invasive endonuclease.
Structure (London, England : 1993) 2009;17(10):1368-76.
2009: Paul M Murphy; Jill M Bolduc; Jasmine L Gallaher; Barry L Stoddard; David Baker
Alteration of enzyme specificity by computational loop remodeling and design.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(23):9215-20.
2009: Hui Li; Stefan Pellenz; Umut Ulge; Barry L Stoddard; Raymond J Monnat
Generation of single-chain LAGLIDADG homing endonucleases from native homodimeric precursor proteins.
Nucleic acids research 2009;37(5):1650-62.
2009: Audrey McConnell Smith; Ryo Takeuchi; Stefan Pellenz; Luther Davis; Nancy Maizels; Raymond J Monnat; Barry L Stoddard
Generation of a nicking enzyme that stimulates site-specific gene conversion from the I-AniI LAGLIDADG homing endonuclease.
Proceedings of the National Academy of Sciences of the United States of America 2009;106(13):5099-104.
2009: Lei Zhao; Stefan Pellenz; Barry L Stoddard
Activity and specificity of the bacterial PD-(D/E)XK homing endonuclease I-Ssp6803I.
Journal of molecular biology 2009;385(5):1498-510.
2009: Ryo Takeuchi; Michael Certo; Mark G Caprara; Andrew M Scharenberg; Barry L Stoddard
Optimization of in vivo activity of a bifunctional homing endonuclease and maturase reverses evolutionary degradation.
Nucleic acids research 2009;37(3):877-90.
2008: Abigail R Lambert; Django Sussman; Betty Shen; Robert Maunus; Jay Nix; James Samuelson; Shuang-Yong Xu; Barry L Stoddard
Structures of the rare-cutting restriction endonuclease NotI reveal a unique metal binding fold involved in DNA binding.
Structure (London, England : 1993) 2008;16(4):558-69.
2008: Tiffany S Stolworthy; Aaron M Korkegian; Candice l Willmon; Andressa Ardiani; Jennifer Cundiff; Barry L Stoddard; Margaret E Black
Yeast cytosine deaminase mutants with increased thermostability impart sensitivity to 5-fluorocytosine.
Journal of molecular biology 2008;377(3):854-69.
2008: Lin Jiang; Eric A Althoff; Fernando R Clemente; Lindsey Doyle; Daniela Röthlisberger; Alexandre Zanghellini; Jasmine L Gallaher; Jamie L Betker; Fujie Tanaka; Carlos F Barbas; Donald Hilvert; Kendall N Houk; Barry L Stoddard; David Baker
De novo computational design of retro-aldol enzymes.
Science (New York, N.Y.) 2008;319(5868):1387-91.
2008: Betty W Shen; P Clint Spiegel; Chong-Hwan Chang; Jae-Wook Huh; Jung-Sik Lee; Jeanman Kim; Young-Ho Kim; Barry L Stoddard
The tertiary structure and domain organization of coagulation factor VIII.
Blood 2008;111(3):1240-7.
2007: Michelle Scalley-Kim; Audrey McConnell-Smith; Barry L Stoddard
Coevolution of a homing endonuclease and its host target sequence.
Journal of molecular biology 2007;372(5):1305-19.
2007: Jennifer H Eastberg; Jennifer Eklund; Raymond J Monnat; Barry L Stoddard
Mutability of an HNH nuclease imidazole general base and exchange of a deprotonation mechanism.
Biochemistry 2007;46(24):7215-25.
2007: Lei Zhao; Richard P Bonocora; David A Shub; Barry L Stoddard
The restriction fold turns to the dark side: a bacterial homing endonuclease with a PD-(D/E)-XK motif.
The EMBO journal 2007;26(9):2432-42.
2007: Jennifer H Eastberg; Audrey McConnell Smith; Lei Zhao; Justin Ashworth; Betty W Shen; Barry L Stoddard
Thermodynamics of DNA target site recognition by homing endonucleases.
Nucleic acids research 2007;35(21):7209-21.
2007: Petra Volná; Jordan Jarjour; Sarah Baxter; Steve R Roffler; Raymond J Monnat; Barry L Stoddard; Andrew M Scharenberg
Flow cytometric analysis of DNA binding and cleavage by cell surface-displayed homing endonucleases.
Nucleic acids research 2007;35(8):2748-58.
2006: Gautam Dantas; Alexander L Watters; Bradley M Lunde; Ziad M Eletr; Nancy G Isern; Toby Roseman; Jan Lipfert; Sebastian Doniach; Martin Tompa; Brian Kuhlman; Barry L Stoddard; Gabriele Varani; David Baker
Mis-translation of a computationally designed protein yields an exceptionally stable homodimer: implications for protein engineering and evolution.
Journal of molecular biology 2006;362(5):1004-24.
2006: Lukasz A Joachimiak; Tanja Kortemme; Barry L Stoddard; David Baker
Computational design of a new hydrogen bond network and at least a 300-fold specificity switch at a protein-protein interface.
Journal of molecular biology 2006;361(1):195-208.
2006: Justin Ashworth; James J Havranek; Carlos M Duarte; Django Sussman; Raymond J Monnat; Barry L Stoddard; David Baker
Computational redesign of endonuclease DNA binding and cleavage specificity.
Nature 2006;441(7093):656-9.
2006: Markus Landthaler; Betty W Shen; Barry L Stoddard; David A Shub
I-BasI and I-HmuI: two phage intron-encoded endonucleases with homologous DNA recognition sequences but distinct DNA specificities.
Journal of molecular biology 2006;358(4):1137-51.
2006: P Clint Spiegel; Brett Chevalier; Django Sussman; Monique Turmel; Claude Lemieux; Barry L Stoddard
The structure of I-CeuI homing endonuclease: Evolving asymmetric DNA recognition from a symmetric protein scaffold.
Structure (London, England : 1993) 2006;14(5):869-80.
2006: Laura E Rosen; Holly A Morrison; Selma Masri; Michael J Brown; Brendan Springstubb; Django Sussman; Barry L Stoddard; Lenny M Seligman
Homing endonuclease I-CreI derivatives with novel DNA target specificities.
Nucleic acids research 2006;34(17):4791-800.
2005: Aaron Korkegian; Margaret E Black; David Baker; Barry L Stoddard
Computational thermostabilization of an enzyme.
Science (New York, N.Y.) 2005;308(5723):857-60.
2005: Anne-Laure Perraud; Christina L Takanishi; Betty Shen; Shin Kang; Megan K Smith; Carsten Schmitz; Heather M Knowles; Dana Ferraris; Weixing Li; Jie Zhang; Barry L Stoddard; Andrew M Scharenberg
Accumulation of free ADP-ribose from mitochondria mediates oxidative stress-induced gating of TRPM2 cation channels.
The Journal of biological chemistry 2005;280(7):6138-48.
2005: Barry L Stoddard
Homing endonuclease structure and function.
Quarterly reviews of biophysics 2005;38(1):49-95.
2004: P Clint Spiegel; Paul Murphy; Barry L Stoddard
Surface-exposed hemophilic mutations across the factor VIII C2 domain have variable effects on stability and binding activities.
The Journal of biological chemistry 2004;279(51):53691-8.
2004: Brett Chevalier; Django Sussman; Christian Otis; Ann-Josée Noël; Monique Turmel; Claude Lemieux; Kathy Stephens; Raymond J Monnat; Barry L Stoddard
Metal-dependent DNA cleavage mechanism of the I-CreI LAGLIDADG homing endonuclease.
Biochemistry 2004;43(44):14015-26.
2004: P Clint Spiegel; Shari M Kaiser; Julian A Simon; Barry L Stoddard
Disruption of protein-membrane binding and identification of small-molecule inhibitors of coagulation factor VIII.
Chemistry & biology 2004;11(10):1413-22.
2004: Betty W Shen; Markus Landthaler; David A Shub; Barry L Stoddard
DNA binding and cleavage by the HNH homing endonuclease I-HmuI.
Journal of molecular biology 2004;342(1):43-56.
2004: Django Sussman; Meggen S Chadsey; Steve Fauce; Alex Engel; Anna Bruett; Raymond J Monnat; Barry L Stoddard; Lenny M Seligman
Isolation and characterization of new homing endonuclease specificities at individual target site positions.
Journal of molecular biology 2004;342(1):31-41.
2004: Sheri D Mahan; Gregory C Ireton; Catherine Knoeber; Barry L Stoddard; Margaret E Black
Random mutagenesis and selection of Escherichia coli cytosine deaminase for cancer gene therapy.
Protein engineering, design & selection : PEDS 2004;17(8):625-33.
2004: Sheri D Mahan; Gregory C Ireton; Barry L Stoddard; Margaret E Black
Alanine-scanning mutagenesis reveals a cytosine deaminase mutant with altered substrate preference.
Biochemistry 2004;43(28):8957-64.
2004: Naomi J H Cotton; Barry L Stoddard; William W Parson
Oxidative inhibition of human soluble catechol-O-methyltransferase.
The Journal of biological chemistry 2004;279(22):23710-8.
2004: Tanja Kortemme; Lukasz A Joachimiak; Alex N Bullock; Aaron D Schuler; Barry L Stoddard; David Baker
Computational redesign of protein-protein interaction specificity.
Nature structural & molecular biology 2004;11(4):371-9.
2004: Gregory C Ireton; Barry L Stoddard
Microseed matrix screening to improve crystals of yeast cytosine deaminase.
Acta crystallographica. Section D, Biological crystallography 2004;60(Pt 3):601-5.
2004: Anya Bakhrat; Melissa S Jurica; Barry L Stoddard; Dina Raveh
Homology modeling and mutational analysis of Ho endonuclease of yeast.
Genetics 2004;166(2):721-8.
2004: Jennifer H Eastberg; John Pelletier; Barry L Stoddard
Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase.
Nucleic acids research 2004;32(2):653-60.
2003: Jill M Bolduc; P Clint Spiegel; Piyali Chatterjee; Kristina L Brady; Maureen E Downing; Mark G Caprara; Richard B Waring; Barry L Stoddard
Structural and biochemical analyses of DNA and RNA binding by a bifunctional homing endonuclease and group I intron splicing factor.
Genes & development 2003;17(23):2875-88.
2003: Brian Kuhlman; Gautam Dantas; Gregory C Ireton; Gabriele Varani; Barry L Stoddard; David Baker
Design of a novel globular protein fold with atomic-level accuracy.
Science (New York, N.Y.) 2003;302(5649):1364-8.
2003: Betty W Shen; Anne-Laure Perraud; Andrew M Scharenberg; Barry L Stoddard
The crystal structure and mutational analysis of human NUDT9.
Journal of molecular biology 2003;332(2):385-98.
2003: Gregory C Ireton; Margaret E Black; Barry L Stoddard
The 1.14 A crystal structure of yeast cytosine deaminase: evolution of nucleotide salvage enzymes and implications for genetic chemotherapy.
Structure (London, England : 1993) 2003;11(8):961-72.
2003: Brett Chevalier; Monique Turmel; Claude Lemieux; Raymond J Monnat; Barry L Stoddard
Flexible DNA target site recognition by divergent homing endonuclease isoschizomers I-CreI and I-MsoI.
Journal of molecular biology 2003;329(2):253-69.
2003: Anne-Laure Perraud; Betty Shen; Christopher A Dunn; Karsten Rippe; Megan K Smith; Maurice J Bessman; Barry L Stoddard; Andrew M Scharenberg
NUDT9, a member of the Nudix hydrolase family, is an evolutionarily conserved mitochondrial ADP-ribose pyrophosphatase.
The Journal of biological chemistry 2003;278(3):1794-801.
2002: Eric A Galburt; Barry L Stoddard
Catalytic mechanisms of restriction and homing endonucleases.
Biochemistry 2002;41(47):13851-60.
2002: P Clint Spiegel; Barry L Stoddard
Optimization of factor VIII replacement therapy: can structural studies help in evading antibody inhibitors?
British journal of haematology 2002;119(2):310-22.
2002: Brett Chevalier; Tanja Kortemme; Meggen S Chadsey; David Baker; Raymond J Monnat; Barry L Stoddard
Design, activity, and structure of a highly specific artificial endonuclease.
Molecular cell 2002;10(4):895-905.
2002: Eric A Galburt; John Pelletier; Geoffrey Wilson; Barry L Stoddard
Structure of a tRNA repair enzyme and molecular biology workhorse: T4 polynucleotide kinase.
Structure (London, England : 1993) 2002;10(9):1249-60.
2002: Gregory C Ireton; Gerry McDermott; Margaret E Black; Barry L Stoddard
The structure of Escherichia coli cytosine deaminase.
Journal of molecular biology 2002;315(4):687-97.
2001: Gregory C Ireton; Margaret E Black; Barry L Stoddard
Crystallization and preliminary X-ray analysis of bacterial cytosine deaminase.
Acta crystallographica. Section D, Biological crystallography 2001;57(Pt 11):1643-5.
2001: B S Chevalier; Barry L Stoddard
Homing endonucleases: structural and functional insight into the catalysts of intron/intein mobility.
Nucleic acids research 2001;29(18):3757-74.
2001: P Clint Spiegel; Marc Jacquemin; Jean-Marie Saint-Remy; Barry L Stoddard; Kathleen P Pratt
Structure of a factor VIII C2 domain-immunoglobulin G4kappa Fab complex: identification of an inhibitory antibody epitope on the surface of factor VIII.
Blood 2001;98(1):13-9.
2001: Barry L Stoddard
Trapping reaction intermediates in macromolecular crystals for structural analyses.
Methods (San Diego, Calif.) 2001;24(2):125-38.
2001: Brett Chevalier; Raymond J Monnat; Barry L Stoddard
The homing endonuclease I-CreI uses three metals, one of which is shared between the two active sites.
Nature structural biology 2001;8(4):312-6.
2000: C J Bond; Melissa S Jurica; Andrew D Mesecar; Barry L Stoddard
Determinants of allosteric activation of yeast pyruvate kinase and identification of novel effectors using computational screening.
Biochemistry 2000;39(50):15333-43.
2000: C J Bond; J Huang; R Hajduk; KE Flick; PJ Heath; Barry L Stoddard
Cloning, sequence and crystallographic structure of recombinant iron superoxide dismutase from Pseudomonas ovalis.
Acta crystallographica. Section D, Biological crystallography 2000;56(Pt 11):1359-66.
2000: Miao-Liang Liu; Betty W Shen; Shelley M Nakaya; Kathleen P Pratt; Kazuo Fujikawa; Earl W Davie; Barry L Stoddard; Arthur R Thompson
Hemophilic factor VIII C1- and C2-domain missense mutations and their modeling to the 1.5-angstrom human C2-domain crystal structure.
Blood 2000;96(3):979-87.
2000: Eric A Galburt; Meggen S Chadsey; Melissa S Jurica; Brett Chevalier; D Erho; W Tang; Raymond J Monnat; Barry L Stoddard
Conformational changes and cleavage by the homing endonuclease I-PpoI: a critical role for a leucine residue in the active site.
Journal of molecular biology 2000;300(4):877-87.
2000: Eric A Galburt; Barry L Stoddard
Restriction endonucleases: one of these things is not like the others.
Nature structural biology 2000;7(2):89-91.
1999: Eric A Galburt; Brett Chevalier; W Tang; Melissa S Jurica; KE Flick; Raymond J Monnat; Barry L Stoddard
A novel endonuclease mechanism directly visualized for I-PpoI.
Nature structural biology 1999;6(12):1096-9.
1999: Kathleen P Pratt; Betty W Shen; K Takeshima; Earl W Davie; Kazuo Fujikawa; Barry L Stoddard
Structure of the C2 domain of human factor VIII at 1.5 A resolution.
Nature 1999;402(6760):439-42.
1999: Melissa S Jurica; Barry L Stoddard
Homing endonucleases: structure, function and evolution.
Cellular and molecular life sciences : CMLS 1999;55(10):1304-26.
1999: Betty W Shen; D H Dyer; JY Huang; L D'Ari; J Rabinowitz; Barry L Stoddard
The crystal structure of a bacterial, bifunctional 5,10 methylene-tetrahydrofolate dehydrogenase/cyclohydrolase.
Protein science : a publication of the Protein Society 1999;8(6):1342-9.
1999: M D Bryant; KE Flick; Rao S Koduri; David C Wilton; Barry L Stoddard; Michael H Gelb
1,3-Dioxane-4,6-dione-5-carboxamide-based inhibitors of human group IIA phospholipase A: X-ray structure of the complex and interfacial selection of inhibitors from a structural library.
Bioorganic & medicinal chemistry letters 1999;9(8):1097-102.
1999: Barry L Stoddard
Visualizing enzyme intermediates using fast diffraction and reaction trapping methods: isocitrate dehydrogenase.
Biochemical Society transactions 1999;27(2):42-8.
1998: Barry L Stoddard
New results using Laue diffraction and time-resolved crystallography.
Current opinion in structural biology 1998;8(5):612-8.
1998: Melissa S Jurica; Raymond J Monnat; Barry L Stoddard
DNA recognition and cleavage by the LAGLIDADG homing endonuclease I-CreI.
Molecular cell 1998;2(4):469-76.
1998: Barry L Stoddard; B E Cohen; M Brubaker; Andrew D Mesecar; Daniel E Koshland
Millisecond Laue structures of an enzyme-product complex using photocaged substrate analogs.
Nature structural biology 1998;5(10):891-7.
1998: Melissa S Jurica; Barry L Stoddard
Mind your B's and R's: bacterial chemotaxis, signal transduction and protein recognition.
Structure (London, England : 1993) 1998;6(7):809-13.
1998: KE Flick; Melissa S Jurica; Raymond J Monnat; Barry L Stoddard
DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI.
Nature 1998;394(6688):96-101.
1998: Melissa S Jurica; Andrew D Mesecar; PJ Heath; W Shi; Thomas Nowak; Barry L Stoddard
The allosteric regulation of pyruvate kinase by fructose-1,6-bisphosphate.
Structure (London, England : 1993) 1998;6(2):195-210.
1997: KE Flick; D McHugh; Joe Don Heath; Kathy Stephens; Raymond J Monnat; Barry L Stoddard
Crystallization and preliminary X-ray studies of I-PpoI: a nuclear, intron-encoded homing endonuclease from Physarum polycephalum.
Protein science : a publication of the Protein Society 1997;6(12):2677-80.
1997: B E Cohen; Barry L Stoddard; Daniel E Koshland
Caged NADP and NAD. Synthesis and characterization of functionally distinct caged compounds.
Biochemistry 1997;36(29):9035-44.
1997: Andrew D Mesecar; Barry L Stoddard; Daniel E Koshland
Orbital steering in the catalytic power of enzymes: small structural changes with large catalytic consequences.
Science (New York, N.Y.) 1997;277(5323):202-6.
1997: PJ Heath; Kathy Stephens; Raymond J Monnat; Barry L Stoddard
The structure of I-Crel, a group I intron-encoded homing endonuclease.
Nature structural biology 1997;4(6):468-76.
1997: Kathy Stephens; Raymond J Monnat; PJ Heath; Barry L Stoddard
Crystallization and preliminary X-ray studies of I-CreI: a group I intron-encoded endonuclease from C. reinhardtii.
Proteins 1997;28(1):137-9.
1997: Evelyn Cheung; L D'Ari; J C Rabinowitz; D H Dyer; JY Huang; Barry L Stoddard
Purification, crystallization, and preliminary x-ray studies of a bifunctional 5,10-methenyl/methylene-tetrahydrofolate cyclohydrolase/dehydrogenase from Escherichia coli.
Proteins 1997;27(2):322-4.
1997: L D'Ari; Evelyn Cheung; J C Rabinowitz; J M Bolduc; JY Huang; Barry L Stoddard
Purification, crystallization, and preliminary X-ray studies of 10-formyltetrahydrofolate synthetase from Clostridia acidici-urici.
Proteins 1997;27(2):319-21.
1996: William G Scott; J B Murray; J R Arnold; Barry L Stoddard; Aaron Klug
Capturing the structure of a catalytic RNA intermediate: the hammerhead ribozyme.
Science (New York, N.Y.) 1996;274(5295):2065-9.
1996: Barry L Stoddard; KE Flick
Calcineurin-immunosuppressor complexes.
Current opinion in structural biology 1996;6(6):770-5.
1996: Barry L Stoddard; A Dean; P A Bash
Combining Laue diffraction and molecular dynamics to study enzyme intermediates.
Nature structural biology 1996;3(7):590-5.
1996: M J Brubaker; D H Dyer; Barry L Stoddard; D E Koshland
Synthesis, kinetics, and structural studies of a photolabile caged isocitrate: a catalytic trigger for isocitrate dehydrogenase.
Biochemistry 1996;35(9):2854-64.
1996: Barry L Stoddard
Intermediate trapping and laue X-ray diffraction: potential for enzyme mechanism, dynamics, and inhibitor screening.
Pharmacology & therapeutics 1996;70(3):215-56.
1995: Barry L Stoddard; G K Farber
Direct measurement of reactivity in the protein crystal by steady-state kinetic studies.
Structure (London, England : 1993) 1995;3(10):991-6.
1995: J M Bolduc; D H Dyer; William G Scott; P Singer; R M Sweet; D E Koshland; Barry L Stoddard
Mutagenesis and Laue structures of enzyme intermediates: isocitrate dehydrogenase.
Science (New York, N.Y.) 1995;268(5215):1312-8.
1995: M E Lee; D H Dyer; O D Klein; J M Bolduc; Barry L Stoddard; D E Koshland
Mutational analysis of the catalytic residues lysine 230 and tyrosine 160 in the NADP(+)-dependent isocitrate dehydrogenase from Escherichia coli.
Biochemistry 1995;34(1):378-84.
1994: William G Scott; Barry L Stoddard
Transmembrane signalling and the aspartate receptor.
Structure (London, England : 1993) 1994;2(9):877-87.
1993: Barry L Stoddard; Daniel E Koshland
Structure of isocitrate dehydrogenase with alpha-ketoglutarate at 2.7-A resolution: conformational changes induced by decarboxylation of isocitrate.
Biochemistry 1993;32(36):9317-22.
1993: Barry L Stoddard; A Dean; Daniel E Koshland
Structure of isocitrate dehydrogenase with isocitrate, nicotinamide adenine dinucleotide phosphate, and calcium at 2.5-A resolution: a pseudo-Michaelis ternary complex.
Biochemistry 1993;32(36):9310-6.
1993: Barry L Stoddard; Daniel E Koshland
Molecular recognition analyzed by docking simulations: the aspartate receptor and isocitrate dehydrogenase from Escherichia coli.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(4):1146-53.
1993: Barry L Stoddard; G K Farber; R K Strong
The facts and fancy of microgravity protein crystallization.
Biotechnology & genetic engineering reviews 1993;11():57-77.
1992: Barry L Stoddard; J D Bui; Daniel E Koshland
Structure and dynamics of transmembrane signaling by the Escherichia coli aspartate receptor.
Biochemistry 1992;31(48):11978-83.
1992: Barry L Stoddard; R K Strong; A Arrott; G K Farber
Mir for the crystallographers' money.
Nature 1992;360(6402):293-4.
1992: Barry L Stoddard; Daniel E Koshland
Prediction of the structure of a receptor-protein complex using a binary docking method.
Nature 1992;358(6389):774-6.
1992: Barry L Stoddard; H P Biemann; Daniel E Koshland
Receptors and transmembrane signaling.
Cold Spring Harbor symposia on quantitative biology 1992;57():1-15.