Stephen Benkovic

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TOP 3
Manosas Maria; Spiering Michelle M; Zhuang Zhihao; Benkovic Stephen J; Croquette Vincent
Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome.
Arumugam Sri Ranjini; Lee Tae-Hee; Benkovic Stephen J
Investigation of stoichiometry of T4 bacteriophage helicase loader protein (gp59).
Li Hui; Fast Walter; Benkovic Stephen J
Structural and functional modularity of proteins in the de novo purine biosynthetic pathway.

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All Publications

2009: Manosas Maria; Spiering Michelle M; Zhuang Zhihao; Benkovic Stephen J; Croquette Vincent
Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome.
Nature chemical biology 2009;5(12):904-12.
2009: Arumugam Sri Ranjini; Lee Tae-Hee; Benkovic Stephen J
Investigation of stoichiometry of T4 bacteriophage helicase loader protein (gp59).
The Journal of biological chemistry 2009;284(43):29283-9.
2009: Li Hui; Fast Walter; Benkovic Stephen J
Structural and functional modularity of proteins in the de novo purine biosynthetic pathway.
Protein science : a publication of the Protein Society 2009;18(5):881-92.
2009: Nelson Scott W; Perumal Senthil K; Benkovic Stephen J
Processive and unidirectional translocation of monomeric UvsW helicase on single-stranded DNA.
Biochemistry 2009;48(5):1036-46.
2008: Spiering Michelle M; Nelson Scott W; Benkovic Stephen J
Repetitive lagging strand DNA synthesis by the bacteriophage T4 replisome.
Molecular bioSystems 2008;4(11):1070-4.
2008: Lee Jeeyeon; Natarajan Madhusudan; Nashine Vishal C; Socolich Michael; Vo Tina; Russ William P; Benkovic Stephen J; Ranganathan Rama
Surface sites for engineering allosteric control in proteins.
Science (New York, N.Y.) 2008;322(5900):438-42.
2008: Goodey Nina M; Benkovic Stephen J
Allosteric regulation and catalysis emerge via a common route.
Nature chemical biology 2008;4(8):474-82.
2008: Nelson Scott W; Kumar Ravindra; Benkovic Stephen J
RNA primer handoff in bacteriophage T4 DNA replication: the role of single-stranded DNA-binding protein and polymerase accessory proteins.
The Journal of biological chemistry 2008;283(33):22838-46.
2008: An Songon; Kumar Ravindra; Sheets Erin D; Benkovic Stephen J
Reversible compartmentalization of de novo purine biosynthetic complexes in living cells.
Science (New York, N.Y.) 2008;320(5872):103-6.
2008: Zhuang Zhihao; Johnson Robert E; Haracska Lajos; Prakash Louise; Prakash Satya; Benkovic Stephen J
Regulation of polymerase exchange between Poleta and Poldelta by monoubiquitination of PCNA and the movement of DNA polymerase holoenzyme.
Proceedings of the National Academy of Sciences of the United States of America 2008;105(14):5361-6.
2008: Benkovic Stephen J; Hammes Gordon G; Hammes-Schiffer Sharon
Free-energy landscape of enzyme catalysis.
Biochemistry 2008;47(11):3317-21.
2008: Tomsho John W; Benkovic Stephen J
Unnatural translation initiation.
ACS chemical biology 2008;3(2):87-8.
2008: Naumann Todd A; Tavassoli Ali; Benkovic Stephen J
Genetic selection of cyclic peptide Dam methyltransferase inhibitors.
Chembiochem : a European journal of chemical biology 2008;9(2):194-7.
2007: Lionnet Timothée; Spiering Michelle M; Benkovic Stephen J; Bensimon David; Croquette Vincent
Real-time observation of bacteriophage T4 gp41 helicase reveals an unwinding mechanism.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(50):19790-5.
2007: Cheng Lin; Naumann Todd A; Horswill Alexander R; Hong Sue-Jean; Venters Bryan J; Tomsho John W; Benkovic Stephen J; Keiler Kenneth C
Discovery of antibacterial cyclic peptides that inhibit the ClpXP protease.
Protein science : a publication of the Protein Society 2007;16(8):1535-42.
2007: Rock Fernando L; Mao Weimin; Yaremchuk Anya; Tukalo Mikhail; Crépin Thibaut; Zhou Huchen; Zhang Yong-Kang; Hernandez Vincent; Akama Tsutomu; Baker Stephen J; Plattner Jacob J; Shapiro Lucy; Martinis Susan A; Benkovic Stephen J; Cusack Stephen; Alley M R K
An antifungal agent inhibits an aminoacyl-tRNA synthetase by trapping tRNA in the editing site.
Science (New York, N.Y.) 2007;316(5832):1759-61.
2007: Nelson Scott W; Benkovic Stephen J
The T4 phage UvsW protein contains both DNA unwinding and strand annealing activities.
The Journal of biological chemistry 2007;282(1):407-16.
2007: Tavassoli Ali; Benkovic Stephen J
Split-intein mediated circular ligation used in the synthesis of cyclic peptide libraries in E. coli.
Nature protocols 2007;2(5):1126-33.
2006: Horswill Alexander R; Benkovic Stephen J
Identifying small-molecule modulators of protein-protein interactions.
Current protocols in protein science / editorial board, John E. Coligan ... [et al.] 2006;Chapter 19():Unit 19.15.
2006: Baker Stephen J; Akama Tsutomu; Zhang Yong-Kang; Sauro Vittorio; Pandit Chetan; Singh Rajeshwar; Kully Maureen; Khan Jehangir; Plattner Jacob J; Benkovic Stephen J; Lee Ving; Maples Kirk R
Identification of a novel boron-containing antibacterial agent (AN0128) with anti-inflammatory activity, for the potential treatment of cutaneous diseases.
Bioorganic & medicinal chemistry letters 2006;16(23):5963-7.
2006: Wang Lin; Goodey Nina M; Benkovic Stephen J; Kohen Amnon
Coordinated effects of distal mutations on environmentally coupled tunneling in dihydrofolate reductase.
Proceedings of the National Academy of Sciences of the United States of America 2006;103(43):15753-8.
2006: Wang Lin; Goodey Nina M; Benkovic Stephen J; Kohen Amnon
The role of enzyme dynamics and tunnelling in catalysing hydride transfer: studies of distal mutants of dihydrofolate reductase.
Philosophical transactions of the Royal Society of London. Series B, Biological sciences 2006;361(1472):1307-15.
2006: Smiley R Derike; Zhuang Zhihao; Benkovic Stephen J; Hammes Gordon G
Single-molecule investigation of the T4 bacteriophage DNA polymerase holoenzyme: multiple pathways of holoenzyme formation.
Biochemistry 2006;45(26):7990-7.
2006: Zhuang Zhihao; Berdis Anthony J; Benkovic Stephen J
An alternative clamp loading pathway via the T4 clamp loader gp44/62-DNA complex.
Biochemistry 2006;45(26):7976-89.
2006: Saraf Manish C; Moore Gregory L; Goodey Nina M; Cao Vania Y; Benkovic Stephen J; Maranas Costas D
IPRO: an iterative computational protein library redesign and optimization procedure.
Biophysical journal 2006;90(11):4167-80.
2006: Benkovic Stephen J; Hammes-Schiffer Sharon
Biochemistry. Enzyme motions inside and out.
Science (New York, N.Y.) 2006;312(5771):208-9.
2006: Nelson Scott W; Yang Jingsong; Benkovic Stephen J
Site-directed mutations of T4 helicase loading protein (gp59) reveal multiple modes of DNA polymerase inhibition and the mechanism of unlocking by gp41 helicase.
The Journal of biological chemistry 2006;281(13):8697-706.
2006: Zhuang Zhihao; Yoder Bonita L; Burgers Peter M J; Benkovic Stephen J
The structure of a ring-opened proliferating cell nuclear antigen-replication factor C complex revealed by fluorescence energy transfer.
Proceedings of the National Academy of Sciences of the United States of America 2006;103(8):2546-51.
2006: Wang Lin; Tharp Scott; Selzer Tzvia; Benkovic Stephen J; Kohen Amnon
Effects of a distal mutation on active site chemistry.
Biochemistry 2006;45(5):1383-92.
2006: Park Hee-Sung; Nam Sung-Hun; Lee Jin Kak; Yoon Chang No; Mannervik Bengt; Benkovic Stephen J; Kim Hak-Sung
Design and evolution of new catalytic activity with an existing protein scaffold.
Science (New York, N.Y.) 2006;311(5760):535-8.
2006: Yang Jingsong; Nelson Scott W; Benkovic Stephen J
The control mechanism for lagging strand polymerase recycling during bacteriophage T4 DNA replication.
Molecular cell 2006;21(2):153-64.
2006: Hammes-Schiffer Sharon; Benkovic Stephen J
Relating protein motion to catalysis.
Annual review of biochemistry 2006;75():519-41.
2005: Antikainen Nina M; Smiley R Derike; Benkovic Stephen J; Hammes Gordon G
Conformation coupled enzyme catalysis: single-molecule and transient kinetics investigation of dihydrofolate reductase.
Biochemistry 2005;44(51):16835-43.
2005: Naumann Todd A; Savinov Sergey N; Benkovic Stephen J
Engineering an affinity tag for genetically encoded cyclic peptides.
Biotechnology and bioengineering 2005;92(7):820-30.
2005: Benkovic Stephen J; Baker Stephen J; Alley M R K; Woo Youn-Hi; Zhang Yong-Kang; Akama Tsutomu; Mao Weimin; Baboval Justin; Rajagopalan P T Ravi; Wall Mark; Kahng Lyn Sue; Tavassoli Ali; Shapiro Lucy
Identification of borinic esters as inhibitors of bacterial cell growth and bacterial methyltransferases, CcrM and MenH.
Journal of medicinal chemistry 2005;48(23):7468-76.
2005: Griswold Karl E; Kawarasaki Yasuaki; Ghoneim Nada; Benkovic Stephen J; Iverson Brent L; Georgiou George
Evolution of highly active enzymes by homology-independent recombination.
Proceedings of the National Academy of Sciences of the United States of America 2005;102(29):10082-7.
2005: Yang Jingsong; Xi Jun; Zhuang Zhihao; Benkovic Stephen J
The oligomeric T4 primase is the functional form during replication.
The Journal of biological chemistry 2005;280(27):25416-23.
2005: Xi Jun; Zhang Zhiquan; Zhuang Zhihao; Yang Jingsong; Spiering Michelle M; Hammes Gordon G; Benkovic Stephen J
Interaction between the T4 helicase loading protein (gp59) and the DNA polymerase (gp43): unlocking of the gp59-gp43-DNA complex to initiate assembly of a fully functional replisome.
Biochemistry 2005;44(21):7747-56.
2005: Cheng Heng; Hwang Inkyu; Chong Youhoon; Tavassoli Ali; Webb Michael E; Zhang Yan; Wilson Ian A; Benkovic Stephen J; Boger Dale L
Synthesis and biological evaluation of N-[4-[5-(2,4-diamino-6-oxo-1,6-dihydropyrimidin-5-yl)-2-(2,2,2-trifluoroacetyl)pentyl]benzoyl]-L-glutamic acid as a potential inhibitor of GAR Tfase and the de novo purine biosynthetic pathway.
Bioorganic & medicinal chemistry 2005;13(10):3593-9.
2005: Chong Youhoon; Hwang Inkyu; Tavassoli Ali; Zhang Yan; Wilson Ian A; Benkovic Stephen J; Boger Dale L
Synthesis and biological evaluation of alpha- and gamma-carboxamide derivatives of 10-CF3CO-DDACTHF.
Bioorganic & medicinal chemistry 2005;13(10):3587-92.
2005: Cheng Heng; Chong Youhoon; Hwang Inkyu; Tavassoli Ali; Zhang Yan; Wilson Ian A; Benkovic Stephen J; Boger Dale L
Design, synthesis, and biological evaluation of 10-methanesulfonyl-DDACTHF, 10-methanesulfonyl-5-DACTHF, and 10-methylthio-DDACTHF as potent inhibitors of GAR Tfase and the de novo purine biosynthetic pathway.
Bioorganic & medicinal chemistry 2005;13(10):3577-85.
2005: Woo Youn-Hi; Rajagopalan P T Ravi; Benkovic Stephen J
A nonradioactive DNA methyltransferase assay adaptable to high-throughput screening.
Analytical biochemistry 2005;340(2):336-40.
2005: Wong Kim F; Selzer Tzvia; Benkovic Stephen J; Hammes-Schiffer Sharon
Impact of distal mutations on the network of coupled motions correlated to hydride transfer in dihydrofolate reductase.
Proceedings of the National Academy of Sciences of the United States of America 2005;102(19):6807-12.
2005: Horswill Alexander R; Benkovic Stephen J
Cyclic peptides, a chemical genetics tool for biologists.
Cell cycle (Georgetown, Tex.) 2005;4(4):552-5.
2005: Tavassoli Ali; Benkovic Stephen J
Genetically selected cyclic-peptide inhibitors of AICAR transformylase homodimerization.
Angewandte Chemie (International ed. in English) 2005;44(18):2760-3.
2005: Norcum Mona T; Warrington J Anthony; Spiering Michelle M; Ishmael Faoud T; Trakselis Michael A; Benkovic Stephen J
Architecture of the bacteriophage T4 primosome: electron microscopy studies of helicase (gp41) and primase (gp61).
Proceedings of the National Academy of Sciences of the United States of America 2005;102(10):3623-6.
2005: Zhang Zhiquan; Spiering Michelle M; Trakselis Michael A; Ishmael Faoud T; Xi Jun; Benkovic Stephen J; Hammes Gordon G
Assembly of the bacteriophage T4 primosome: single-molecule and ensemble studies.
Proceedings of the National Academy of Sciences of the United States of America 2005;102(9):3254-9.
2005: Xi Jun; Zhuang Zhihao; Zhang Zhiquan; Selzer Tzvia; Spiering Michelle M; Hammes Gordon G; Benkovic Stephen J
Interaction between the T4 helicase-loading protein (gp59) and the DNA polymerase (gp43): a locking mechanism to delay replication during replisome assembly.
Biochemistry 2005;44(7):2305-18.
2004: Venkitakrishnan Rani P; Zaborowski Eduardo; McElheny Dan; Benkovic Stephen J; Dyson H Jane; Wright Peter E
Conformational changes in the active site loops of dihydrofolate reductase during the catalytic cycle.
Biochemistry 2004;43(51):16046-55.
2004: Joyce Catherine M; Benkovic Stephen J
DNA polymerase fidelity: kinetics, structure, and checkpoints.
Biochemistry 2004;43(45):14317-24.
2004: Horswill Alexander R; Savinov Sergey N; Benkovic Stephen J
A systematic method for identifying small-molecule modulators of protein-protein interactions.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(44):15591-6.
2004: Millar David; Trakselis Michael A; Benkovic Stephen J
On the solution structure of the T4 sliding clamp (gp45).
Biochemistry 2004;43(40):12723-7.
2004: Zhuang Zhihao; Spiering Michelle M; Berdis Anthony J; Trakselis Michael A; Benkovic Stephen J
'Screw-cap' clamp loader proteins that thread.
Nature structural & molecular biology 2004;11(7):580-1.
2004: Yang Jingsong; Zhuang Zhihao; Roccasecca Rosa Maria; Trakselis Michael A; Benkovic Stephen J
The dynamic processivity of the T4 DNA polymerase during replication.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(22):8289-94.
2004: Sikorski R Steven; Wang Lin; Markham Kelli A; Rajagopalan P T Ravi; Benkovic Stephen J; Kohen Amnon
Tunneling and coupled motion in the Escherichia coli dihydrofolate reductase catalysis.
Journal of the American Chemical Society 2004;126(15):4778-9.
2004: Saraf Manish C; Horswill Alexander R; Benkovic Stephen J; Maranas Costas D
FamClash: a method for ranking the activity of engineered enzymes.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(12):4142-7.
2004: Zhang Zhiquan; Rajagopalan P T Ravi; Selzer Tzvia; Benkovic Stephen J; Hammes Gordon G
Single-molecule and transient kinetics investigation of the interaction of dihydrofolate reductase with NADPH and dihydrofolate.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(9):2764-9.
2004: Horswill Alexander R; Naumann Todd A; Benkovic Stephen J
Using incremental truncation to create libraries of hybrid enzymes.
Methods in enzymology 2004;388():50-60.
2003: Trakselis Michael A; Roccasecca Rosa Maria; Yang Jingsong; Valentine Ann M; Benkovic Stephen J
Dissociative properties of the proteins within the bacteriophage T4 replisome.
The Journal of biological chemistry 2003;278(50):49839-49.
2003: Yang Jingsong; Trakselis Michael A; Roccasecca Rosa Maria; Benkovic Stephen J
The application of a minicircle substrate in the study of the coordinated T4 DNA replication.
The Journal of biological chemistry 2003;278(50):49828-38.
2003: Kawarasaki Yasuaki; Griswold Karl E; Stevenson James D; Selzer Tzvia; Benkovic Stephen J; Iverson Brent L; Georgiou George
Enhanced crossover SCRATCHY: construction and high-throughput screening of a combinatorial library containing multiple non-homologous crossovers.
Nucleic acids research 2003;31(21):e126.
2003: Lee Seung-Goo; Lutz Stefan; Benkovic Stephen J
On the structural and functional modularity of glycinamide ribonucleotide formyltransferases.
Protein science : a publication of the Protein Society 2003;12(10):2206-14.
2003: Desharnais Joel; Hwang Inkyu; Zhang Yan; Tavassoli Ali; Baboval Justin; Benkovic Stephen J; Wilson Ian A; Boger Dale L
Design, synthesis and biological evaluation of 10-CF3CO-DDACTHF analogues and derivatives as inhibitors of GAR Tfase and the de novo purine biosynthetic pathway.
Bioorganic & medicinal chemistry 2003;11(20):4511-21.
2003: Marsilje Thomas H; Hedrick Michael P; Desharnais Joel; Capps Kevin; Tavassoli Ali; Zhang Yan; Wilson Ian A; Benkovic Stephen J; Boger Dale L
10-(2-benzoxazolcarbonyl)-5,10-dideaza-acyclic-5,6,7,8-tetrahydrofolic acid: a potential inhibitor of GAR transformylase and AICAR transformylase.
Bioorganic & medicinal chemistry 2003;11(20):4503-9.
2003: Marsilje Thomas H; Hedrick Michael P; Desharnais Joel; Tavassoli Ali; Zhang Yan; Wilson Ian A; Benkovic Stephen J; Boger Dale L
Design, synthesis, and biological evaluation of simplified alpha-keto heterocycle, trifluoromethyl ketone, and formyl substituted folate analogues as potential inhibitors of GAR transformylase and AICAR transformylase.
Bioorganic & medicinal chemistry 2003;11(20):4487-501.
2003: Wolan Dennis W; Greasley Samantha E; Wall Mark J; Benkovic Stephen J; Wilson Ian A
Structure of avian AICAR transformylase with a multisubstrate adduct inhibitor beta-DADF identifies the folate binding site.
Biochemistry 2003;42(37):10904-14.
2003: Benkovic Stephen J; Hammes-Schiffer Sharon
A perspective on enzyme catalysis.
Science (New York, N.Y.) 2003;301(5637):1196-202.
2003: Pineda Pamela; Kanter Aaron; McIvor R Scott; Benkovic Stephen J; Rosowsky Andre; Wagner Carston R
Dihydrofolate reductase mutant with exceptional resistance to methotrexate but not to trimetrexate.
Journal of medicinal chemistry 2003;46(14):2816-8.
2003: Huntley James J A; Fast Walter; Benkovic Stephen J; Wright Peter E; Dyson H Jane
Role of a solvent-exposed tryptophan in the recognition and binding of antibiotic substrates for a metallo-beta-lactamase.
Protein science : a publication of the Protein Society 2003;12(7):1368-75.
2003: Zhang Yan; Desharnais Joel; Marsilje Thomas H; Li Chenglong; Hedrick Michael P; Gooljarsingh Lata T; Tavassoli Ali; Benkovic Stephen J; Olson Arthur J; Boger Dale L; Wilson Ian A
Rational design, synthesis, evaluation, and crystal structure of a potent inhibitor of human GAR Tfase: 10-(trifluoroacetyl)-5,10-dideazaacyclic-5,6,7,8-tetrahydrofolic acid.
Biochemistry 2003;42(20):6043-56.
2003: Savinov Sergey N; Hirschmann Ralph; Benkovic Stephen J; Smith Amos B
Investigation of an antibody-ligase. Evidence for strain-induced catalysis.
Bioorganic & medicinal chemistry letters 2003;13(7):1321-4.
2003: Trakselis Michael A; Berdis Anthony J; Benkovic Stephen J
Examination of the role of the clamp-loader and ATP hydrolysis in the formation of the bacteriophage T4 polymerase holoenzyme.
Journal of molecular biology 2003;326(2):435-51.
2003: Ishmael Faoud T; Trakselis Michael A; Benkovic Stephen J
Protein-protein interactions in the bacteriophage T4 replisome. The leading strand holoenzyme is physically linked to the lagging strand holoenzyme and the primosome.
The Journal of biological chemistry 2003;278(5):3145-52.
2003: Firestine Steven M; Salinas Frank; Benkovic Stephen J
Using transcriptional-based systems for in vivo enzyme screening.
Methods in molecular biology (Clifton, N.J.) 2003;205():315-27.
2003: Abel-Santos Ernesto; Scott Charles P; Benkovic Stephen J
Use of inteins for the in vivo production of stable cyclic peptide libraries in E. coli.
Methods in molecular biology (Clifton, N.J.) 2003;205():281-94.
2002: Lutz Stefan; Fast Walter; Benkovic Stephen J
A universal, vector-based system for nucleic acid reading-frame selection.
Protein engineering 2002;15(12):1025-30.
2002: Rajagopalan P T Ravi; Lutz Stefan; Benkovic Stephen J
Coupling interactions of distal residues enhance dihydrofolate reductase catalysis: mutational effects on hydride transfer rates.
Biochemistry 2002;41(42):12618-28.
2002: Rajagopalan P T Ravi; Zhang Zhiquan; McCourt Lynn; Dwyer Mary; Benkovic Stephen J; Hammes Gordon G
Interaction of dihydrofolate reductase with methotrexate: ensemble and single-molecule kinetics.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(21):13481-6.
2002: Marsilje Thomas H; Labroli Marc A; Hedrick Michael P; Jin Qing; Desharnais Joel; Baker Stephen J; Gooljarsingh Lata T; Ramcharan Joseph; Tavassoli Ali; Zhang Yan; Wilson Ian A; Beardsley G Peter; Benkovic Stephen J; Boger Dale L
10-Formyl-5,10-dideaza-acyclic-5,6,7,8-tetrahydrofolic acid (10-formyl-DDACTHF): a potent cytotoxic agent acting by selective inhibition of human GAR Tfase and the de novo purine biosynthetic pathway.
Bioorganic & medicinal chemistry 2002;10(8):2739-49.
2002: Thoden James B; Firestine Steven M; Benkovic Stephen J; Holden Hazel M
PurT-encoded glycinamide ribonucleotide transformylase. Accommodation of adenosine nucleotide analogs within the active site.
The Journal of biological chemistry 2002;277(26):23898-908.
2002: Ishmael Faoud T; Alley Stephen C; Benkovic Stephen J
Assembly of the bacteriophage T4 helicase: architecture and stoichiometry of the gp41-gp59 complex.
The Journal of biological chemistry 2002;277(23):20555-62.
2002: Agarwal Pratul K; Billeter Salomon R; Rajagopalan P T Ravi; Benkovic Stephen J; Hammes-Schiffer Sharon
Network of coupled promoting motions in enzyme catalysis.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(5):2794-9.
2002: Rajagopalan P T Ravi; Benkovic Stephen J
Preorganization and protein dynamics in enzyme catalysis.
Chemical record (New York, N.Y.) 2002;2(1):24-36.
2001: Valentine A M; Ishmael F T; Shier V K; Benkovic S J
A zinc ribbon protein in DNA replication: primer synthesis and macromolecular interactions by the bacteriophage T4 primase.
Biochemistry 2001;40(50):15074-85.
2001: Trakselis M A; Benkovic S J
Intricacies in ATP-dependent clamp loading: variations across replication systems.
Structure (London, England : 1993) 2001;9(11):999-1004.
2001: Greasley S E; Marsilje T H; Cai H; Baker S; Benkovic S J; Boger D L; Wilson I A
Unexpected formation of an epoxide-derived multisubstrate adduct inhibitor on the active site of GAR transformylase.
Biochemistry 2001;40(45):13538-47.
2001: Alley S C; Trakselis M A; Mayer M U; Ishmael F T; Jones A D; Benkovic S J
Building a replisome solution structure by elucidation of protein-protein interactions in the bacteriophage T4 DNA polymerase holoenzyme.
The Journal of biological chemistry 2001;276(42):39340-9.
2001: Lutz S; Ostermeier M; Moore G L; Maranas C D; Benkovic S J
Creating multiple-crossover DNA libraries independent of sequence identity.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(20):11248-53.
2001: Trakselis M A; Mayer M U; Ishmael F T; Roccasecca R M; Benkovic S J
Dynamic protein interactions in the bacteriophage T4 replisome.
Trends in biochemical sciences 2001;26(9):566-72.
2001: Scott C P; Abel-Santos E; Jones A D; Benkovic S J
Structural requirements for the biosynthesis of backbone cyclic peptide libraries.
Chemistry & biology 2001;8(8):801-15.
2001: Osborne M J; Schnell J; Benkovic S J; Dyson H J; Wright P E
Backbone dynamics in dihydrofolate reductase complexes: role of loop flexibility in the catalytic mechanism.
Biochemistry 2001;40(33):9846-59.
2001: Trakselis M A; Alley S C; Abel-Santos E; Benkovic S J
Creating a dynamic picture of the sliding clamp during T4 DNA polymerase holoenzyme assembly by using fluorescence resonance energy transfer.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(15):8368-75.
2001: Ishmael F T; Alley S C; Benkovic S J
Identification and mapping of protein-protein interactions between gp32 and gp59 by cross-linking.
The Journal of biological chemistry 2001;276(27):25236-42.
2001: Gooljarsingh L T; Ramcharan J; Gilroy S; Benkovic S J
Localization of GAR transformylase in Escherichia coli and mammalian cells.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(12):6565-70.
2001: Ishmael F T; Norcum M T; Benkovic S J; Bond J S
Multimeric structure of the secreted meprin A metalloproteinase and characterization of the functional protomer.
The Journal of biological chemistry 2001;276(25):23207-11.
2001: Shim J H; Wall M; Benkovic S J; Díaz N; Suárez D; Merz K M
Evaluation of the catalytic mechanism of AICAR transformylase by pH-dependent kinetics, mutagenesis, and quantum chemical calculations.
Journal of the American Chemical Society 2001;123(20):4687-96.
2001: Greasley S E; Horton P; Ramcharan J; Beardsley G P; Benkovic S J; Wilson I A
Crystal structure of a bifunctional transformylase and cyclohydrolase enzyme in purine biosynthesis.
Nature structural biology 2001;8(5):402-6.
2001: Shier V K; Hancey C J; Benkovic S J
Identification of the active oligomeric state of an essential adenine DNA methyltransferase from Caulobacter crescentus.
The Journal of biological chemistry 2001;276(18):14744-51.
2001: Moore G L; Maranas C D; Lutz S; Benkovic S J
Predicting crossover generation in DNA shuffling.
Proceedings of the National Academy of Sciences of the United States of America 2001;98(6):3226-31.
2001: Wahnon D C; Shier V K; Benkovic S J
Mechanism-based inhibition of an essential bacterial adenine DNA methyltransferase: rationally designed antibiotics.
Journal of the American Chemical Society 2001;123(5):976-7.
2001: Fast W; Wang Z; Benkovic S J
Familial mutations and zinc stoichiometry determine the rate-limiting step of nitrocefin hydrolysis by metallo-beta-lactamase from Bacteroides fragilis.
Biochemistry 2001;40(6):1640-50.
2001: Lutz S; Ostermeier M; Benkovic S J
Rapid generation of incremental truncation libraries for protein engineering using alpha-phosphothioate nucleotides.
Nucleic acids research 2001;29(4):E16.
2001: Miller G P; Wahnon D C; Benkovic S J
Interloop contacts modulate ligand cycling during catalysis by Escherichia coli dihydrofolate reductase.
Biochemistry 2001;40(4):867-75.
2001: Benkovic S J; Valentine A M; Salinas F
Replisome-mediated DNA replication.
Annual review of biochemistry 2001;70():181-208.
2000: Wall M; Shim J H; Benkovic S J
Human AICAR transformylase: role of the 4-carboxamide of AICAR in binding and catalysis.
Biochemistry 2000;39(37):11303-11.
2000: Lutz S; Benkovic S J
Homology-independent protein engineering.
Current opinion in biotechnology 2000;11(4):319-24.
2000: Thoden J B; Firestine S; Nixon A; Benkovic S J; Holden H M
Molecular structure of Escherichia coli PurT-encoded glycinamide ribonucleotide transformylase.
Biochemistry 2000;39(30):8791-802.
2000: Boger D L; Marsilje T H; Castro R A; Hedrick M P; Jin Q; Baker S J; Shim J H; Benkovic S J
Design, synthesis, and biological evaluation of fluoronitrophenyl substituted folate analogues as potential inhibitors of GAR transformylase and AICAR transformylase.
Bioorganic & medicinal chemistry letters 2000;10(13):1471-5.
2000: Salinas F; Benkovic S J
Characterization of bacteriophage T4-coordinated leading- and lagging-strand synthesis on a minicircle substrate.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(13):7196-201.
2000: Boger D L; Labroli M A; Marsilje T H; Jin Q; Hedrick M P; Baker S J; Shim J H; Benkovic S J
Conformationally restricted analogues designed for selective inhibition of GAR Tfase versus thymidylate synthase or dihydrofolate reductase.
Bioorganic & medicinal chemistry 2000;8(5):1075-86.
2000: Nixon A E; Benkovic S J
Improvement in the efficiency of formyl transfer of a GAR transformylase hybrid enzyme.
Protein engineering 2000;13(5):323-7.
2000: Bruice T C; Benkovic S J
Chemical basis for enzyme catalysis.
Biochemistry 2000;39(21):6267-74.
2000: Firestine S M; Salinas F; Nixon A E; Baker S J; Benkovic S J
Using an AraC-based three-hybrid system to detect biocatalysts in vivo.
Nature biotechnology 2000;18(5):544-7.
2000: Alley S C; Abel-Santos E; Benkovic S J
Tracking sliding clamp opening and closing during bacteriophage T4 DNA polymerase holoenzyme assembly.
Biochemistry 2000;39(11):3076-90.
2000: Smithrud D B; Benkovic P A; Benkovic S J; Roberts V; Liu J; Neagu I; Iwama S; Phillips B W; Smith A B; Hirschmann R
Cyclic peptide formation catalyzed by an antibody ligase.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(5):1953-8.
1999: Greasley S E; Yamashita M M; Cai H; Benkovic S J; Boger D L; Wilson I A
New insights into inhibitor design from the crystal structure and NMR studies of Escherichia coli GAR transformylase in complex with beta-GAR and 10-formyl-5,8,10-trideazafolic acid.
Biochemistry 1999;38(51):16783-93.
1999: Ostermeier M; Shim J H; Benkovic S J
A combinatorial approach to hybrid enzymes independent of DNA homology.
Nature biotechnology 1999;17(12):1205-9.
1999: Scott C P; Abel-Santos E; Wall M; Wahnon D C; Benkovic S J
Production of cyclic peptides and proteins in vivo.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(24):13638-43.
1999: Scrofani S D; Chung J; Huntley J J; Benkovic S J; Wright P E; Dyson H J
NMR characterization of the metallo-beta-lactamase from Bacteroides fragilis and its interaction with a tight-binding inhibitor: role of an active-site loop.
Biochemistry 1999;38(44):14507-14.
1999: Ostermeier M; Nixon A E; Benkovic S J
Incremental truncation as a strategy in the engineering of novel biocatalysts.
Bioorganic & medicinal chemistry 1999;7(10):2139-44.
1999: Wang Z; Fast W; Valentine A M; Benkovic S J
Metallo-beta-lactamase: structure and mechanism.
Current opinion in chemical biology 1999;3(5):614-22.
1999: Wall M; Shim J H; Benkovic S J
A multisubstrate adduct inhibitor of AICAR transformylase.
Journal of medicinal chemistry 1999;42(18):3421-4.
1999: Alley S C; Jones A D; Soumillion P; Benkovic S J
The carboxyl terminus of the bacteriophage T4 DNA polymerase contacts its sliding clamp at the subunit interface.
The Journal of biological chemistry 1999;274(35):24485-9.
1999: Thayer M M; Olender E H; Arvai A S; Koike C K; Canestrelli I L; Stewart J D; Benkovic S J; Getzoff E D; Roberts V A
Structural basis for amide hydrolysis catalyzed by the 43C9 antibody.
Journal of molecular biology 1999;291(2):329-45.
1999: Shim J H; Benkovic S J
Catalytic mechanism of Escherichia coli glycinamide ribonucleotide transformylase probed by site-directed mutagenesis and pH-dependent studies.
Biochemistry 1999;38(31):10024-31.
1999: Wang Z; Fast W; Benkovic S J
On the mechanism of the metallo-beta-lactamase from Bacteroides fragilis.
Biochemistry 1999;38(31):10013-23.
1999: Alley S C; Shier V K; Abel-Santos E; Sexton D J; Soumillion P; Benkovic S J
Sliding clamp of the bacteriophage T4 polymerase has open and closed subunit interfaces in solution.
Biochemistry 1999;38(24):7696-709.
1999: Nixon A E; Firestine S M; Salinas F G; Benkovic S J
Rational design of a scytalone dehydratase-like enzyme using a structurally homologous protein scaffold.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(7):3568-71.
1999: Ostermeier M; Nixon A E; Shim J H; Benkovic S J
Combinatorial protein engineering by incremental truncation.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(7):3562-7.
1998: Wu P; Nossal N; Benkovic S J
Kinetic characterization of a bacteriophage T4 antimutator DNA polymerase.
Biochemistry 1998;37(42):14748-55.
1998: Cannon W R; Benkovic S J
Solvation, reorganization energy, and biological catalysis.
The Journal of biological chemistry 1998;273(41):26257-60.
1998: Berdis A J; Benkovic S J
Simultaneous formation of functional leading and lagging strand holoenzyme complexes on a small, defined DNA substrate.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(19):11128-33.
1998: Wang Z; Benkovic S J
Purification, characterization, and kinetic studies of a soluble Bacteroides fragilis metallo-beta-lactamase that provides multiple antibiotic resistance.
The Journal of biological chemistry 1998;273(35):22402-8.
1998: Su Y; Yamashita M M; Greasley S E; Mullen C A; Shim J H; Jennings P A; Benkovic S J; Wilson I A
A pH-dependent stabilization of an active site loop observed from low and high pH crystal structures of mutant monomeric glycinamide ribonucleotide transformylase at 1.8 to 1.9 A.
Journal of molecular biology 1998;281(3):485-99.
1998: Boger D L; Kochanny M J; Cai H; Wyatt D; Kitos P A; Warren M S; Ramcharan J; Gooljarsingh L T; Benkovic S J
Design, synthesis, and evaluation of potential GAR and AICAR transformylase inhibitors.
Bioorganic & medicinal chemistry 1998;6(6):643-59.
1998: Nixon A E; Ostermeier M; Benkovic S J
Hybrid enzymes: manipulating enzyme design.
Trends in biotechnology 1998;16(6):258-64.
1998: Shim J H; Benkovic S J
Evaluation of the kinetic mechanism of Escherichia coli glycinamide ribonucleotide transformylase.
Biochemistry 1998;37(24):8776-82.
1998: Sexton D J; Kaboord B F; Berdis A J; Carver T E; Benkovic S J
Dissecting the order of bacteriophage T4 DNA polymerase holoenzyme assembly.
Biochemistry 1998;37(21):7749-56.
1998: Miller G P; Benkovic S J
Stretching exercises--flexibility in dihydrofolate reductase catalysis.
Chemistry & biology 1998;5(5):R105-13.
1998: Miller G P; Benkovic S J
Strength of an interloop hydrogen bond determines the kinetic pathway in catalysis by Escherichia coli dihydrofolate reductase.
Biochemistry 1998;37(18):6336-42.
1998: Miller G P; Benkovic S J
Deletion of a highly motional residue affects formation of the Michaelis complex for Escherichia coli dihydrofolate reductase.
Biochemistry 1998;37(18):6327-35.
1998: Berdis A J; Lee I; Coward J K; Stephens C; Wright R; Shapiro L; Benkovic S J
A cell cycle-regulated adenine DNA methyltransferase from Caulobacter crescentus processively methylates GANTC sites on hemimethylated DNA.
Proceedings of the National Academy of Sciences of the United States of America 1998;95(6):2874-9.
1998: Soumillion P; Sexton D J; Benkovic S J
Clamp subunit dissociation dictates bacteriophage T4 DNA polymerase holoenzyme disassembly.
Biochemistry 1998;37(7):1819-27.
1998: Zhong W; Benkovic S J
Development of an internally quenched fluorescent substrate for Escherichia coli leader peptidase.
Analytical biochemistry 1998;255(1):66-73.
1997: Cameron C E; Benkovic S J
Evidence for a functional role of the dynamics of glycine-121 of Escherichia coli dihydrofolate reductase obtained from kinetic analysis of a site-directed mutant.
Biochemistry 1997;36(50):15792-800.
1997: Carver T E; Sexton D J; Benkovic S J
Dissociation of bacteriophage T4 DNA polymerase and its processivity clamp after completion of Okazaki fragment synthesis.
Biochemistry 1997;36(47):14409-17.
1997: Sexton D J; Berdis A J; Benkovic S J
Assembly and disassembly of DNA polymerase holoenzyme.
Current opinion in chemical biology 1997;1(3):316-22.
1997: Boger D L; Haynes N E; Warren M S; Ramcharan J; Kitos P A; Benkovic S J
Multisubstrate analogue based on 5,8,10-trideazafolate.
Bioorganic & medicinal chemistry 1997;5(9):1853-7.
1997: Boger D L; Haynes N E; Warren M S; Ramcharan J; Marolewski A E; Kitos P A; Benkovic S J
Abenzyl 10-formyl-trideazafolic acid (abenzyl 10-formyl-TDAF): an effective inhibitor of glycinamide ribonucleotide transformylase.
Bioorganic & medicinal chemistry 1997;5(9):1847-52.
1997: Boger D L; Haynes N E; Warren M S; Ramcharan J; Kitos P A; Benkovic S J
Functionalized analogues of 5,8,10-trideazafolate: development of an enzyme-assembled tight binding inhibitor of GAR Tfase and a potential irreversible inhibitor of AICAR Tfase.
Bioorganic & medicinal chemistry 1997;5(9):1839-46.
1997: Boger D L; Haynes N E; Warren M S; Gooljarsingh L T; Ramcharan J; Kitos P A; Benkovic S J
Functionalized analogues of 5,8,10-trideazafolate as potential inhibitors of GAR Tfase or AICAR Tfase.
Bioorganic & medicinal chemistry 1997;5(9):1831-8.
1997: Boger D L; Haynes N E; Kitos P A; Warren M S; Ramcharan J; Marolewski A E; Benkovic S J
10-Formyl-5,8,10-trideazafolic acid (10-formyl-TDAF): a potent inhibitor of glycinamide ribonucleotide transformylase.
Bioorganic & medicinal chemistry 1997;5(9):1817-30.
1997: Cannon W R; Garrison B J; Benkovic S J
Consideration of the pH-dependent inhibition of dihydrofolate reductase by methotrexate.
Journal of molecular biology 1997;271(4):656-68.
1997: Smithrud D B; Benkovic S J
The state of antibody catalysis.
Current opinion in biotechnology 1997;8(4):459-66.
1997: Cameron C E; Ghosh M; Le Grice S F; Benkovic S J
Mutations in HIV reverse transcriptase which alter RNase H activity and decrease strand transfer efficiency are suppressed by HIV nucleocapsid protein.
Proceedings of the National Academy of Sciences of the United States of America 1997;94(13):6700-5.
1997: Marolewski A E; Mattia K M; Warren M S; Benkovic S J
Formyl phosphate: a proposed intermediate in the reaction catalyzed by Escherichia coli PurT GAR transformylase.
Biochemistry 1997;36(22):6709-16.
1997: Miller G P; Posner B A; Benkovic S J
Expanding the 43C9 class of catalytic antibodies using a chain-shuffling approach.
Bioorganic & medicinal chemistry 1997;5(3):581-90.
1997: Berdis A J; Benkovic S J
Mechanism of bacteriophage T4 DNA holoenzyme assembly: the 44/62 protein acts as a molecular motor.
Biochemistry 1997;36(10):2733-43.
1997: Nixon A E; Warren M S; Benkovic S J
Assembly of an active enzyme by the linkage of two protein modules.
Proceedings of the National Academy of Sciences of the United States of America 1997;94(4):1069-73.
1997: Warren M S; Benkovic S J
Combinatorial manipulation of three key active site residues in glycinamide ribonucleotide transformylase.
Protein engineering 1997;10(1):63-8.
1996: Berdis A J; Soumillion P; Benkovic S J
The carboxyl terminus of the bacteriophage T4 DNA polymerase is required for holoenzyme complex formation.
Proceedings of the National Academy of Sciences of the United States of America 1996;93(23):12822-7.
1996: Sexton D J; Carver T E; Berdis A J; Benkovic S J
Protein-protein and protein-DNA interactions at the bacteriophage T4 DNA replication fork. Characterization of a fluorescently labeled DNA polymerase sliding clamp.
The Journal of biological chemistry 1996;271(45):28045-51.
1996: Firestine S M; Nixon A E; Benkovic S J
Threading your way to protein function.
Chemistry & biology 1996;3(10):779-83.
1996: Crowder M W; Wang Z; Franklin S L; Zovinka E P; Benkovic S J
Characterization of the metal-binding sites of the beta-lactamase from Bacteroides fragilis.
Biochemistry 1996;35(37):12126-32.
1996: Berdis A J; Benkovic S J
Role of adenosine 5'-triphosphate hydrolysis in the assembly of the bacteriophage T4 DNA replication holoenzyme complex.
Biochemistry 1996;35(28):9253-65.
1996: Warren M S; Marolewski A E; Benkovic S J
A rapid screen of active site mutants in glycinamide ribonucleotide transformylase.
Biochemistry 1996;35(27):8855-62.
1996: Raney K D; Carver T E; Benkovic S J
Stoichiometry and DNA unwinding by the bacteriophage T4 41:59 helicase.
The Journal of biological chemistry 1996;271(24):14074-81.
1996: Frey M W; Frey S T; Horrocks W D; Kaboord B F; Benkovic S J
Elucidation of the metal-binding properties of the Klenow fragment of Escherichia coli polymerase I and bacteriophage T4 DNA polymerase by lanthanide(III) luminescence spectroscopy.
Chemistry & biology 1996;3(5):393-403.
1996: Brummel C L; Vickerman J C; Carr S A; Hemling M E; Roberts G D; Johnson W; Weinstock J; Gaitanopoulos D; Benkovic S J; Winograd N
Evaluation of mass spectrometric methods applicable to the direct analysis of non-peptide bead-bound combinatorial libraries.
Analytical chemistry 1996;68(2):237-42.
1996: Kaboord B F; Benkovic S J
Dual role of the 44/62 protein as a matchmaker protein and DNA polymerase chaperone during assembly of the bacteriophage T4 holoenzyme complex.
Biochemistry 1996;35(3):1084-92.
1995: Wagner C R; Huang Z; Singleton S F; Benkovic S J
Molecular basis for nonadditive mutational effects in Escherichia coli dihydrofolate reductase.
Biochemistry 1995;34(48):15671-80.
1995: Lee I; Stewart J D; Zhong W; Benkovic S J
A chemiluminescent immunoassay for the identification of functional single-chain antibodies.
Analytical biochemistry 1995;230(1):62-7.
1995: Raney K D; Benkovic S J
Bacteriophage T4 Dda helicase translocates in a unidirectional fashion on single-stranded DNA.
The Journal of biological chemistry 1995;270(38):22236-42.
1995: Epstein D M; Benkovic S J; Wright P E
Dynamics of the dihydrofolate reductase-folate complex: catalytic sites and regions known to undergo conformational change exhibit diverse dynamical features.
Biochemistry 1995;34(35):11037-48.
1995: Frey M W; Sowers L C; Millar D P; Benkovic S J
The nucleotide analog 2-aminopurine as a spectroscopic probe of nucleotide incorporation by the Klenow fragment of Escherichia coli polymerase I and bacteriophage T4 DNA polymerase.
Biochemistry 1995;34(28):9185-92.
1995: Carr R T; Balasubramanian S; Hawkins P C; Benkovic S J
Mechanism of metal-independent hydroxylation by Chromobacterium violaceum phenylalanine hydroxylase.
Biochemistry 1995;34(22):7525-32.
1995: Klein C; Chen P; Arevalo J H; Stura E A; Marolewski A; Warren M S; Benkovic S J; Wilson I A
Towards structure-based drug design: crystal structure of a multisubstrate adduct complex of glycinamide ribonucleotide transformylase at 1.96 A resolution.
Journal of molecular biology 1995;249(1):153-75.
1995: Kaboord B F; Benkovic S J
Accessory proteins function as matchmakers in the assembly of the T4 DNA polymerase holoenzyme.
Current biology : CB 1995;5(2):149-57.
1995: Krebs J F; Siuzdak G; Dyson H J; Stewart J D; Benkovic S J
Detection of a catalytic antibody species acylated at the active site by electrospray mass spectrometry.
Biochemistry 1995;34(3):720-3.
1995: Capson T L; Benkovic S J; Nossal N G
Photochemical cross-linking of DNA replication proteins at primer terminus.
Methods in enzymology 1995;262():449-56.
1995: Benkovic S J; Cameron C E
Kinetic analysis of nucleotide incorporation and misincorporation by Klenow fragment of Escherichia coli DNA polymerase I.
Methods in enzymology 1995;262():257-69.
1995: Stewart J D; Lee I; Posner B A; Benkovic S J
Expression of properly folded catalytic antibodies in Escherichia coli.
Methods in enzymology 1995;249():507-19.
1994: Peliska J A; Balasubramanian S; Giedroc D P; Benkovic S J
Recombinant HIV-1 nucleocapsid protein accelerates HIV-1 reverse transcriptase catalyzed DNA strand transfer reactions and modulates RNase H activity.
Biochemistry 1994;33(46):13817-23.
1994: Huang Z; Wagner C R; Benkovic S J
Nonadditivity of mutational effects at the folate binding site of Escherichia coli dihydrofolate reductase.
Biochemistry 1994;33(38):11576-85.
1994: Smiley J A; Benkovic S J
Selection of catalytic antibodies for a biosynthetic reaction from a combinatorial cDNA library by complementation of an auxotrophic Escherichia coli: antibodies for orotate decarboxylation.
Proceedings of the National Academy of Sciences of the United States of America 1994;91(18):8319-23.
1994: Gopalakrishnan V; Benkovic S J
Spatial relationship between polymerase and exonuclease active sites of phage T4 DNA polymerase enzyme.
The Journal of biological chemistry 1994;269(33):21123-6.
1994: Stewart J D; Krebs J F; Siuzdak G; Berdis A J; Smithrud D B; Benkovic S J
Dissection of an antibody-catalyzed reaction.
Proceedings of the National Academy of Sciences of the United States of America 1994;91(16):7404-9.
1994: Balasubramanian S; Carr R T; Bender C J; Peisach J; Benkovic S J
Identification of metal ligands in Cu(II)-inhibited Chromobacterium violaceum phenylalanine hydroxylase by electron spin echo envelope modulation analysis of histidine to serine mutations.
Biochemistry 1994;33(28):8532-7.
1994: Raney K D; Sowers L C; Millar D P; Benkovic S J
A fluorescence-based assay for monitoring helicase activity.
Proceedings of the National Academy of Sciences of the United States of America 1994;91(14):6644-8.
1994: Falzone C J; Cavanagh J; Cowart M; Palmer A G; Matthews C R; Benkovic S J; Wright P E
1H, 15N and 13C resonance assignments, secondary structure, and the conformation of substrate in the binary folate complex of Escherichia coli dihydrofolate reductase.
Journal of biomolecular NMR 1994;4(3):349-66.
1994: Brummel C L; Lee I N; Zhou Y; Benkovic S J; Winograd N
A mass spectrometric solution to the address problem of combinatorial libraries.
Science (New York, N.Y.) 1994;264(5157):399-402.
1994: Posner B; Smiley J; Lee I; Benkovic S
Catalytic antibodies: perusing combinatorial libraries.
Trends in biochemical sciences 1994;19(4):145-50.
1994: Peliska J A; Benkovic S J
Fidelity of in vitro DNA strand transfer reactions catalyzed by HIV-1 reverse transcriptase.
Biochemistry 1994;33(13):3890-5.
1994: Marolewski A; Smith J M; Benkovic S J
Cloning and characterization of a new purine biosynthetic enzyme: a non-folate glycinamide ribonucleotide transformylase from E. coli.
Biochemistry 1994;33(9):2531-7.
1994: Stewart J D; Roberts V A; Thomas N R; Getzoff E D; Benkovic S J
Site-directed mutagenesis of a catalytic antibody: an arginine and a histidine residue play key roles.
Biochemistry 1994;33(8):1994-2003.
1994: Gopalakrishnan V; Benkovic S
Effect of a thiobenzimidazolone derivative on DNA strand transfer catalyzed by HIV-1 reverse transcriptase.
The Journal of biological chemistry 1994;269(6):4110-5.
1994: Roberts V A; Stewart J; Benkovic S J; Getzoff E D
Catalytic antibody model and mutagenesis implicate arginine in transition-state stabilization.
Journal of molecular biology 1994;235(3):1098-116.
1994: Falzone C J; Wright P E; Benkovic S J
Dynamics of a flexible loop in dihydrofolate reductase from Escherichia coli and its implication for catalysis.
Biochemistry 1994;33(2):439-42.
1993: Carr R T; Benkovic S J
An examination of the copper requirement of phenylalanine hydroxylase from Chromobacterium violaceum.
Biochemistry 1993;32(51):14132-8.
1993: Kaboord B F; Benkovic S J
Rapid assembly of the bacteriophage T4 core replication complex on a linear primer/template construct.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(22):10881-5.
1993: Posner B; Lee I; Itoh T; Pyati J; Graff R; Thorton G B; La Polla R; Benkovic S J
A revised strategy for cloning antibody gene fragments in bacteria.
Gene 1993;128(1):111-7.
1993: Frey M W; Nossal N G; Capson T L; Benkovic S J
Construction and characterization of a bacteriophage T4 DNA polymerase deficient in 3'-->5' exonuclease activity.
Proceedings of the National Academy of Sciences of the United States of America 1993;90(7):2579-83.
1993: Gibbs B S; Wojchowski D; Benkovic S J
Expression of rat liver phenylalanine hydroxylase in insect cells and site-directed mutagenesis of putative non-heme iron-binding sites.
The Journal of biological chemistry 1993;268(11):8046-52.
1993: Stewart J D; Benkovic S J
Recent developments in catalytic antibodies.
International reviews of immunology 1993;10(2-3):229-40.
1993: Balasubramanian S; Carr R T; Bender C J; Peisach J; Benkovic S J
Histidines 138 and 143 are copper binding ligands in Chromobacterium violaceum phenylalanine hydroxylase.
Advances in experimental medicine and biology 1993;338():67-70.
1993: Carr R T; Benkovic S J
A re-examination of the metal requirement of Chromobacterium violaceum phenylalanine hydroxylase.
Advances in experimental medicine and biology 1993;338():63-6.
1992: Capson T L; Peliska J A; Kaboord B F; Frey M W; Lively C; Dahlberg M; Benkovic S J
Kinetic characterization of the polymerase and exonuclease activities of the gene 43 protein of bacteriophage T4.
Biochemistry 1992;31(45):10984-94.
1992: Peliska J A; Benkovic S J
Mechanism of DNA strand transfer reactions catalyzed by HIV-1 reverse transcriptase.
Science (New York, N.Y.) 1992;258(5085):1112-8.
1992: Gopalakrishnan V; Peliska J A; Benkovic S J
Human immunodeficiency virus type 1 reverse transcriptase: spatial and temporal relationship between the polymerase and RNase H activities.
Proceedings of the National Academy of Sciences of the United States of America 1992;89(22):10763-7.
1992: Peliska J A; Benkovic S J
A handy enzyme for transcription.
Current biology : CB 1992;2(10):521-3.
1992: Gibbs R A; Taylor S; Benkovic S J
Antibody-catalyzed rearrangement of the peptide bond.
Science (New York, N.Y.) 1992;258(5083):803-5.
1992: Chen P; Schulze-Gahmen U; Stura E A; Inglese J; Johnson D L; Marolewski A; Benkovic S J; Wilson I A
Crystal structure of glycinamide ribonucleotide transformylase from Escherichia coli at 3.0 A resolution. A target enzyme for chemotherapy.
Journal of molecular biology 1992;227(1):283-92.
1992: Wagner C R; Thillet J; Benkovic S J
Complementary perturbation of the kinetic mechanism and catalytic effectiveness of dihydrofolate reductase by side-chain interchange.
Biochemistry 1992;31(34):7834-40.
1992: Li L; Falzone C J; Wright P E; Benkovic S J
Functional role of a mobile loop of Escherichia coli dihydrofolate reductase in transition-state stabilization.
Biochemistry 1992;31(34):7826-33.
1992: Eger B T; Benkovic S J
Minimal kinetic mechanism for misincorporation by DNA polymerase I (Klenow fragment).
Biochemistry 1992;31(38):9227-36.
1992: Wagner C R; Benkovic S J
Probing the molecular basis of resistance to pyrimethamine by site-directed mutagenesis.
Journal of medicinal chemistry 1992;35(15):2912-5.
1992: Polesky A H; Dahlberg M E; Benkovic S J; Grindley N D; Joyce C M
Side chains involved in catalysis of the polymerase reaction of DNA polymerase I from Escherichia coli.
The Journal of biological chemistry 1992;267(12):8417-28.
1992: Huse W D; Sastry L; Iverson S A; Kang A S; Alting-Mees M; Burton D R; Benkovic S J; Lerner R A
Generation of a large combinatorial library of the immunoglobulin repertoire in phage lambda. 1989.
Biotechnology (Reading, Mass.) 1992;24():517-23.
1991: Onishi A; Liotta L J; Benkovic S J
Cloning and expression of Chromobacterium violaceum phenylalanine hydroxylase in Escherichia coli and comparison of amino acid sequence with mammalian aromatic amino acid hydroxylases.
The Journal of biological chemistry 1991;266(28):18454-9.
1991: Barbas C F; Kang A S; Lerner R A; Benkovic S J
Assembly of combinatorial antibody libraries on phage surfaces: the gene III site.
Proceedings of the National Academy of Sciences of the United States of America 1991;88(18):7978-82.
1991: Guest C R; Hochstrasser R A; Dupuy C G; Allen D J; Benkovic S J; Millar D P
Interaction of DNA with the Klenow fragment of DNA polymerase I studied by time-resolved fluorescence spectroscopy.
Biochemistry 1991;30(36):8759-70.
1991: Cowart M; Benkovic S J; Nash H A
Behavior of a cross-linked attachment site: testing the role of branch migration in site-specific recombination.
Journal of molecular biology 1991;220(3):621-9.
1991: Gibbs B S; Benkovic S J
Affinity labeling of the active site and the reactive sulfhydryl associated with activation of rat liver phenylalanine hydroxylase.
Biochemistry 1991;30(27):6795-802.
1991: Wirsching P; Ashley J A; Benkovic S J; Janda K D; Lerner R A
An unexpectedly efficient catalytic antibody operating by ping-pong and induced fit mechanisms.
Science (New York, N.Y.) 1991;252(5006):680-5.
1991: Lerner R A; Benkovic S J; Schultz P G
At the crossroads of chemistry and immunology: catalytic antibodies.
Science (New York, N.Y.) 1991;252(5006):659-67.
1991: Gibbs R A; Posner B A; Filpula D R; Dodd S W; Finkelman M A; Lee T K; Wroble M; Whitlow M; Benkovic S J
Construction and characterization of a single-chain catalytic antibody.
Proceedings of the National Academy of Sciences of the United States of America 1991;88(9):4001-4.
1991: Kang A S; Barbas C F; Janda K D; Benkovic S J; Lerner R A
Linkage of recognition and replication functions by assembling combinatorial antibody Fab libraries along phage surfaces.
Proceedings of the National Academy of Sciences of the United States of America 1991;88(10):4363-6.
1991: Dahlberg M E; Benkovic S J
Kinetic mechanism of DNA polymerase I (Klenow fragment): identification of a second conformational change and evaluation of the internal equilibrium constant.
Biochemistry 1991;30(20):4835-43.
1991: Capson T L; Benkovic S J; Nossal N G
Protein-DNA cross-linking demonstrates stepwise ATP-dependent assembly of T4 DNA polymerase and its accessory proteins on the primer-template.
Cell 1991;65(2):249-58.
1991: Falzone C J; Wright P E; Benkovic S J
Evidence for two interconverting protein isomers in the methotrexate complex of dihydrofolate reductase from Escherichia coli.
Biochemistry 1991;30(8):2184-91.
1991: Li L Y; Benkovic S J
Impact on catalysis of secondary structural manipulation of the alpha C-helix of Escherichia coli dihydrofolate reductase.
Biochemistry 1991;30(6):1470-8.
1991: Eger B T; Kuchta R D; Carroll S S; Benkovic P A; Dahlberg M E; Joyce C M; Benkovic S J
Mechanism of DNA replication fidelity for three mutants of DNA polymerase I: Klenow fragment KF(exo+), KF(polA5), and KF(exo-).
Biochemistry 1991;30(5):1441-8.
1991: Cowart M; Benkovic S J
A novel combined chemical-enzymatic synthesis of cross-linked DNA using a nucleoside triphosphate analogue.
Biochemistry 1991;30(3):788-96.
1991: Carroll S S; Cowart M; Benkovic S J
A mutant of DNA polymerase I (Klenow fragment) with reduced fidelity.
Biochemistry 1991;30(3):804-13.
1991: Benkovic S J; Adams J; Janda K D; Lerner R A
A catalytic antibody uses a multistep kinetic sequence.
Ciba Foundation symposium 1991;159():4-9; discussion 9-12.
1991: Sastry L; Mubaraki M; Janda K D; Benkovic S J; Lerner R A
Screening combinatorial antibody libraries for catalytic acyl transfer reactions.
Ciba Foundation symposium 1991;159():145-51; discussion 151-5.
1991: Benkovic S J
Catalytic antibodies.
Harvey lectures 1991;87():115-28.
1990: Benkovic S J; Adams J A; Borders C L; Janda K D; Lerner R A
The enzymic nature of antibody catalysis: development of multistep kinetic processing.
Science (New York, N.Y.) 1990;250(4984):1135-9.
1990: Falzone C J; Benkovic S J; Wright P E
Partial 1H NMR assignments of the Escherichia coli dihydrofolate reductase complex with folate: evidence for a unique conformation of bound folate.
Biochemistry 1990;29(41):9667-77.
1990: Roberts V A; Iverson B L; Iverson S A; Benkovic S J; Lerner R A; Getzoff E D; Tainer J A
Antibody remodeling: a general solution to the design of a metal-coordination site in an antibody binding pocket.
Proceedings of the National Academy of Sciences of the United States of America 1990;87(17):6654-8.
1990: Wagner C R; Benkovic S J
Site directed mutagenesis: a tool for enzyme mechanism dissection.
Trends in biotechnology 1990;8(9):263-70.
1990: Johnson D L; Mullin R J; Duch D S; Benkovic S J
Direct demonstration of the active salvage of preformed purines by murine tumors.
Biochemical and biophysical research communications 1990;170(3):1164-9.
1990: Iverson B L; Iverson S A; Roberts V A; Getzoff E D; Tainer J A; Benkovic S J; Lerner R A
Metalloantibodies.
Science (New York, N.Y.) 1990;249(4969):659-62.
1990: Inglese J; Smith J M; Benkovic S J
Active-site mapping and site-specific mutagenesis of glycinamide ribonucleotide transformylase from Escherichia coli.
Biochemistry 1990;29(28):6678-87.
1990: Catalano C E; Allen D J; Benkovic S J
Interaction of Escherichia coli DNA polymerase I with azidoDNA and fluorescent DNA probes: identification of protein-DNA contacts.
Biochemistry 1990;29(15):3612-21.
1990: Inglese J; Johnson D L; Shiau A; Smith J M; Benkovic S J
Subcloning, characterization, and affinity labeling of Escherichia coli glycinamide ribonucleotide transformylase.
Biochemistry 1990;29(6):1436-43.
1989: Allen D J; Benkovic S J
Resonance energy transfer measurements between substrate binding sites within the large (Klenow) fragment of Escherichia coli DNA polymerase I.
Biochemistry 1989;28(25):9586-93.
1989: Huse W D; Sastry L; Iverson S A; Kang A S; Alting-Mees M; Burton D R; Benkovic S J; Lerner R A
Generation of a large combinatorial library of the immunoglobulin repertoire in phage lambda.
Science (New York, N.Y.) 1989;246(4935):1275-81.
1989: Adams J; Johnson K; Matthews R; Benkovic S J
Effects of distal point-site mutations on the binding and catalysis of dihydrofolate reductase from Escherichia coli.
Biochemistry 1989;28(16):6611-8.
1989: Sastry L; Alting-Mees M; Huse W D; Short J M; Sorge J A; Hay B N; Janda K D; Benkovic S J; Lerner R A
Cloning of the immunological repertoire in Escherichia coli for generation of monoclonal catalytic antibodies: construction of a heavy chain variable region-specific cDNA library.
Proceedings of the National Academy of Sciences of the United States of America 1989;86(15):5728-32.
1989: Andrews J; Fierke C A; Birdsall B; Ostler G; Feeney J; Roberts G C; Benkovic S J
A kinetic study of wild-type and mutant dihydrofolate reductases from Lactobacillus casei.
Biochemistry 1989;28(14):5743-50.
1989: Sulewski M; Marchese-Ragona S P; Johnson K A; Benkovic S J
Mechanism of polynucleotide phosphorylase.
Biochemistry 1989;28(14):5855-64.
1989: Stura E A; Johnson D L; Inglese J; Smith J M; Benkovic S J; Wilson I A
Preliminary crystallographic investigations of glycinamide ribonucleotide transformylase.
The Journal of biological chemistry 1989;264(16):9703-6.
1989: Inglese J; Blatchly R A; Benkovic S J
A multisubstrate adduct inhibitor of a purine biosynthetic enzyme with a picomolar dissociation constant.
Journal of medicinal chemistry 1989;32(5):937-40.
1989: Allen D J; Darke P L; Benkovic S J
Fluorescent oligonucleotides and deoxynucleotide triphosphates: preparation and their interaction with the large (Klenow) fragment of Escherichia coli DNA polymerase I.
Biochemistry 1989;28(11):4601-7.
1989: Catalano C E; Benkovic S J
Inactivation of DNA polymerase I (Klenow fragment) by adenosine 2',3'-epoxide 5'-triphosphate: evidence for the formation of a tight-binding inhibitor.
Biochemistry 1989;28(10):4374-82.
1989: Janda K D; Benkovic S J; Lerner R A
Catalytic antibodies with lipase activity and R or S substrate selectivity.
Science (New York, N.Y.) 1989;244(4903):437-40.
1989: Murphy D J; Benkovic S J
Hydrophobic interactions via mutants of Escherichia coli dihydrofolate reductase: separation of binding and catalysis.
Biochemistry 1989;28(7):3025-31.
1989: Pember S O; Johnson K A; Villafranca J J; Benkovic S J
Mechanistic studies on phenylalanine hydroxylase from Chromobacterium violaceum. Evidence for the formation of an enzyme-oxygen complex.
Biochemistry 1989;28(5):2124-30.
1989: Cowart M; Gibson K J; Allen D J; Benkovic S J
DNA substrate structural requirements for the exonuclease and polymerase activities of procaryotic and phage DNA polymerases.
Biochemistry 1989;28(5):1975-83.
1989: Iverson S A; Sastry L; Huse W D; Sorge J A; Benkovic S J; Lerner R A
A combinatorial system for cloning and expressing the catalytic antibody repertoire in Escherichia coli.
Cold Spring Harbor symposia on quantitative biology 1989;54 Pt 1():273-81.
1988: Kuchta R D; Cowart M; Allen D; Benkovic S J
Kinetic and structural investigations of the replicative fidelity of the Klenow fragment.
Biochemical Society transactions 1988;16(6):947-9.
1988: Janda K D; Schloeder D; Benkovic S J; Lerner R A
Induction of an antibody that catalyzes the hydrolysis of an amide bond.
Science (New York, N.Y.) 1988;241(4870):1188-91.
1988: Kuchta R D; Benkovic P; Benkovic S J
Kinetic mechanism whereby DNA polymerase I (Klenow) replicates DNA with high fidelity.
Biochemistry 1988;27(18):6716-25.
1988: Benkovic S J; Napper A D; Lerner R A
Catalysis of a stereospecific bimolecular amide synthesis by an antibody.
Proceedings of the National Academy of Sciences of the United States of America 1988;85(15):5355-8.
1988: Parvez M; Napper A D; Benkovic S J
Structure of 6-(iodomethyl)-2-oxo-2-phenoxy-1,2-oxaphosphorinane.
Acta crystallographica. Section C, Crystal structure communications 1988;44 ( Pt 8)():1414-6.
1988: Miller R J; Benkovic S J
L-[2,5-H2]phenylalanine, an alternate substrate for rat liver phenylalanine hydroxylase.
Biochemistry 1988;27(10):3658-63.
1988: Benkovic S J; Fierke C A; Naylor A M
Insights into enzyme function from studies on mutants of dihydrofolate reductase.
Science (New York, N.Y.) 1988;239(4844):1105-10.
1988: Mueller W T; Smith G K; Benkovic S J; Hynes J B
Inhibition of chicken liver 5-aminoimidazole-4-carboxamide ribonucleotide transformylase by 5,8-dideaza analogues of folic acid.
Biochemical pharmacology 1988;37(3):449-51.
1988: Taira K; Benkovic S J
Evaluation of the importance of hydrophobic interactions in drug binding to dihydrofolate reductase.
Journal of medicinal chemistry 1988;31(1):129-37.
1988: Mizrahi V; Benkovic S J
The dynamics of DNA polymerase-catalyzed reactions.
Advances in enzymology and related areas of molecular biology 1988;61():437-57.
1987: Kuchta R D; Mizrahi V; Benkovic P A; Johnson K A; Benkovic S J
Kinetic mechanism of DNA polymerase I (Klenow).
Biochemistry 1987;26(25):8410-7.
1987: Pember S O; Benkovic S J; Villafranca J J; Pasenkiewicz-Gierula M; Antholine W E
Adduct formation between the cupric site of phenylalanine hydroxylase from Chromobacterium violaceum and 6,7-dimethyltetrahydropterin.
Biochemistry 1987;26(14):4477-83.
1987: Chen J T; Taira K; Tu C P; Benkovic S J
Probing the functional role of phenylalanine-31 of Escherichia coli dihydrofolate reductase by site-directed mutagenesis.
Biochemistry 1987;26(13):4093-100.
1987: Fierke C A; Johnson K A; Benkovic S J
Construction and evaluation of the kinetic scheme associated with dihydrofolate reductase from Escherichia coli.
Biochemistry 1987;26(13):4085-92.
1987: Dix T A; Kuhn D M; Benkovic S J
Mechanism of oxygen activation by tyrosine hydroxylase.
Biochemistry 1987;26(12):3354-61.
1987: Pember S O; Villafranca J J; Benkovic S J
Chromobacterium violaceum phenylalanine 4-monooxygenase.
Methods in enzymology 1987;142():50-6.
1987: Tramontano A; Janda K; Napper A D; Benkovic S J; Lerner R A
Catalytic antibodies.
Cold Spring Harbor symposia on quantitative biology 1987;52():91-6.
1987: Fierke C A; Kuchta R D; Johnson K A; Benkovic S J
Implications for enzymic catalysis from free-energy reaction coordinate profiles.
Cold Spring Harbor symposia on quantitative biology 1987;52():631-8.
1986: Pember S O; Villafranca J J; Benkovic S J
Phenylalanine hydroxylase from Chromobacterium violaceum is a copper-containing monooxygenase. Kinetics of the reductive activation of the enzyme.
Biochemistry 1986;25(21):6611-9.
1986: Mizrahi V; Benkovic P; Benkovic S J
Mechanism of DNA polymerase I: exonuclease/polymerase activity switch and DNA sequence dependence of pyrophosphorolysis and misincorporation reactions.
Proceedings of the National Academy of Sciences of the United States of America 1986;83(16):5769-73.
1986: Mizrahi V; Benkovic P A; Benkovic S J
Mechanism of the idling-turnover reaction of the large (Klenow) fragment of Escherichia coli DNA polymerase I.
Proceedings of the National Academy of Sciences of the United States of America 1986;83(2):231-5.
1984: Wasserman G F; Mueller W T; Benkovic S J; Liao W S; Taylor J
Evidence that the folate-requiring enzymes of de novo purine biosynthesis are encoded by individual mRNAs.
Biochemistry 1984;23(26):6704-10.
1982: Smith G K; Mueller W T; Slieker L J; DeBrosse C W; Benkovic S J
Direct transfer of one-carbon units in the transformylations of de novo purine biosynthesis.
Biochemistry 1982;21(12):2870-4.
1981: Smith G K; Mueller W T; Benkovic P A; Benkovic S J
On the cofactor specificity of glycinamide ribonucleotide and 5-aminoimidazole-4-carboxamide ribonucleotide transformylase from chicken liver.
Biochemistry 1981;20(5):1241-5.
1980: Smith G K; Mueller W T; Wasserman G F; Taylor W D; Benkovic S J
Characterization of the enzyme complex involving the folate-requiring enzymes of de novo purine biosynthesis.
Biochemistry 1980;19(18):4313-21.

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