A. Ninfa

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Modular cell biology: retroactivity and insulation

Eduardo Sontag, Domitilla Del Vecchio, A. Ninfa, 2008, Molecular systems biology.

Load-Induced Modulation of Signal Transduction Networks

Eduardo Sontag, Domitilla Del Vecchio, A. Ninfa, 2011, Science Signaling.

Signaling properties of a covalent modification cycle are altered by a downstream target

Domitilla Del Vecchio, A. Ninfa, P. Jiang, 2010, Proceedings of the National Academy of Sciences.

Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli

A. Ninfa, M. Savageau, M. R. Atkinson, 2003, Cell.

Initiation of transcription at the bacterial glnAp2 promoter by purified E. coli components is facilitated by enhancers

A. Ninfa, B. Magasanik, L. Reitzer, 1987, Cell.

Integration of antagonistic signals in the regulation of nitrogen assimilation in Escherichia coli.

A. Ninfa, P. Jiang, M. R. Atkinson, 2000, Current topics in cellular regulation.

The Escherichia coli PII Signal Transduction Protein Is Activated upon Binding 2-Ketoglutarate and ATP (*)

A. Ninfa, M. R. Atkinson, E. Kamberov, 1995, The Journal of Biological Chemistry.

New Insights into the Mechanism of the Kinase and Phosphatase Activities of Escherichia coli NRII (NtrB) and Their Regulation by the PII Protein

A. Ninfa, P. Jiang, M. R. Atkinson, 2003 .

Phosphorylation and dephosphorylation of a bacterial transcriptional activator by a transmembrane receptor.

A. Ninfa, J. Stock, T. Silhavy, 1989, Genes & development.

Protein phosphorylation and regulation of adaptive responses in bacteria.

A. Ninfa, J. Stock, Ann M Stock, 1989, Microbiological reviews.

Characterization of the reconstituted UTase/UR-PII-NRII-NRI bicyclic signal transduction system that controls the transcription of nitrogen-regulated (Ntr) genes in Escherichia coli.

A. Ninfa, P. Jiang, A. Ventura, 2012, Biochemistry.

α-Ketoglutarate Controls the Ability of the Escherichia coli PII Signal Transduction Protein To Regulate the Activities of NRII (NtrB) but Does Not Control the Binding of PII to NRII†

A. Ninfa, P. Jiang, 2009, Biochemistry.

Using two-component systems and other bacterial regulatory factors for the fabrication of synthetic genetic devices.

Nicolas Perry, Avi Mayo, Peter Woolf, 2007, Methods in enzymology.

Assay of prokaryotic enhancer activity over a distance in vitro.

A. Ninfa, Vladimir A Bondarenko, Ye V Liu, 2003, Methods in enzymology.

Context-Dependent Functions of the PII and GlnK Signal Transduction Proteins in Escherichia coli

Alexander J. Ninfa, T. Blauwkamp, A. Ninfa, 2002, Journal of bacteriology.

Governor of the glnAp2 promoter of Escherichia coli

A. Ninfa, M. R. Atkinson, Narinporn Pattaramanon, 2002, Molecular microbiology.

Activation of the glnA, glnK, and nac Promoters as Escherichia coli Undergoes the Transition from Nitrogen Excess Growth to Nitrogen Starvation

Alexander J. Ninfa, T. Blauwkamp, A. Ninfa, 2002, Journal of bacteriology.

PII signal transduction proteins.

A. Ninfa, M. R. Atkinson, A J Ninfa, 2000, Trends in microbiology.

A protein-induced DNA bend increases the specificity of a prokaryotic enhancer-binding protein.

A. Ninfa, J. Dworkin, P. Model, 1998, Genes & development.

Control of Nitrogen Assimilation by the NRI-NRII Two-Component System of Enteric Bacteria

A. Ninfa, M. R. Atkinson, E. Kamberov, 1995 .

Characterization of Escherichia coli glnL mutations affecting nitrogen regulation

A. Ninfa, M. R. Atkinson, A J Ninfa, 1992, Journal of bacteriology.

Mutations in the glnG gene of Escherichia coli that result in increased activity of nitrogen regulator I

A. Ninfa, S. Ueno-Nishio, B. Magasanik, 1989, Journal of bacteriology.

Escherichia coli sigma 54 RNA polymerase recognizes Caulobacter crescentus flbG and flaN flagellar gene promoters in vitro

A. Ninfa, A. Newton, D. Mullin, 1989, Journal of bacteriology.

Purification of nitrogen regulator II, the product of the glnL (ntrB) gene of Escherichia coli

A. Ninfa, S. Ueno-Nishio, B. Magasanik, 1986, Journal of bacteriology.

Building biological memory by linking positive feedback loops

A. Ninfa, M. R. Atkinson, D. Forger, 2009, Proceedings of the National Academy of Sciences.

Substrate-induced modulation of signal transduction networks

Eduardo Sontag, D. Vecchio, A. Ninfa, 2011 .

Comprar Fundamental Laboratory Approaches for Biochemistry and Biotechnology | Alexander J. Ninfa | 9780470087664 | Wiley

A. Ninfa, D. Ballou, M. Parsons, 2008 .

Fundamental Laboratory Approaches for Biochemistry and Biotechnology

Alexander J. Ninfa, A. Ninfa, D. Ballou, 2009 .

Rate constants rather than biochemical mechanism determine behaviour of genetic clocks

Daniel B. Forger, Avraham E Mayo, Daniel B Forger, 2008, Journal of The Royal Society Interface.

Regulation of Autophosphorylation ofEscherichia coli Nitrogen Regulator II by the PII Signal Transduction Protein

Alexander J. Ninfa, A. Ninfa, P. Jiang, 1999, Journal of bacteriology.

Nac‐mediated repression of the serA promoter of Escherichia coli

T. Blauwkamp, A. Ninfa, 2002, Molecular microbiology.

PII signal transduction proteins: sensors of alpha-ketoglutarate that regulate nitrogen metabolism.

A. Ninfa, P. Jiang, 2005, Current opinion in microbiology.

Reconstitution of Escherichia coli Glutamine Synthetase Adenylyltransferase from N-Terminal and C-Terminal Fragments of the Enzyme†

A. Ninfa, P. Jiang, 2008, Biochemistry.

Identification, characterization, and chromosomal organization of cell division cycle genes in Caulobacter crescentus

A. Ninfa, A. Newton, N. Ohta, 1997, Journal of bacteriology.

A source of ultrasensitivity in the glutamine response of the bicyclic cascade system controlling glutamine synthetase adenylylation state and activity in Escherichia coli.

A. Ninfa, P. Jiang, 2011, Biochemistry.

Escherichia coli glutamine synthetase adenylyltransferase (ATase, EC 2.7.7.49): kinetic characterization of regulation by PII, PII-UMP, glutamine, and alpha-ketoglutarate.

A. Ninfa, P. Jiang, A. Mayo, 2007, Biochemistry.

Structure-function analysis of glutamine synthetase adenylyltransferase (ATase, EC 2.7.7.49) of Escherichia coli.

A. Ninfa, P. Jiang, A. Pioszak, 2007, Biochemistry.

The Caulobacter crescentus FlbD protein acts at ftr sequence elements both to activate and to repress transcription of cell cycle-regulated flagellar genes.

A. Ninfa, A. Benson, N. Ohta, 1994, Proceedings of the National Academy of Sciences of the United States of America.

Crystal structure of the C-terminal domain of the two-component system transmitter protein nitrogen regulator II (NRII; NtrB), regulator of nitrogen assimilation in Escherichia coli.

A. Ninfa, Zhaohui Xu, D. Peisach, 2004, Biochemistry.

Mechanism of the PII-activated phosphatase activity of Escherichia coli NRII (NtrB): how the different domains of NRII collaborate to act as a phosphatase.

A. Ninfa, A. Pioszak, 2003, Biochemistry.

Sensory components controlling bacterial nitrogen assimilation.

A. Ninfa, M. R. Atkinson, E. Kamberov, 1994, Cellular & molecular biology research.

Unnecessary Signaling: Poorly Named?

A. Ninfa, 2011, Journal of bacteriology.

COMMENTARIES Unnecessary Signaling: Poorly Named?

A. Ninfa, 2011 .

Regulation of carbon and nitrogen metabolism: Adding regulation of ion channels and another second messenger to the mix

A. Ninfa, 2007, Proceedings of the National Academy of Sciences.

Reversible uridylylation of the Escherichia coli PII signal transduction protein regulates its ability to stimulate the dephosphorylation of the transcription factor nitrogen regulator I (NRI or NtrC).

A. Ninfa, M. R. Atkinson, E. Kamberov, 1994, The Journal of biological chemistry.

Role of the GlnK signal transduction protein in the regulation of nitrogen assimilation in Escherichia coli

A. Ninfa, M. R. Atkinson, Mariette R. Atkinson, 1998, Molecular microbiology.

Covalent modification of the ginG product , NRI , by the glnL product , NRII , regulates the transcription of the glnALG operon in Escherichia coli ( glutamine synthetase / phosphorylation / nitrogen metabolism / positive control )

A. Ninfa, B. Magasanik, 2022 .

Covalent modification of the glnG product, NRI, by the glnL product, NRII, regulates the transcription of the glnALG operon in Escherichia coli.

A. Ninfa, B. Magasanik, 1986, Proceedings of the National Academy of Sciences of the United States of America.

Protein phosphorylation and regulation of adaptive responses in bacteria

A. Ninfa, J. Stock, Ann M Stock, 1989 .

A bacterial environmental sensor that functions as a protein kinase and stimulates transcriptional activation.

A. Ninfa, T. Silhavy, M. Igo, 1989, Genes & development.

Characterization of the regulon controlled by the leucine-responsive regulatory protein in Escherichia coli

A. Ninfa, R. Matthews, M. R. Atkinson, 1992, Journal of bacteriology.

Antagonism of PII signalling by the AmtB protein of Escherichia coli

T. Blauwkamp, A. Ninfa, Timothy A Blauwkamp, 2003, Molecular microbiology.

Physiological Role for the GlnK Protein of Enteric Bacteria: Relief of NifL Inhibition under Nitrogen-Limiting Conditions

A. Ninfa, S. Kustu, Luhong He, 1998, Journal of bacteriology.

Use of two-component signal transduction systems in the construction of synthetic genetic networks.

A. Ninfa, Alexander J Ninfa, 2010, Current opinion in microbiology.

DNA supercoiling allows enhancer action over a large distance

A. Ninfa, Ye V Liu, V. Studitsky, 2001, Proceedings of the National Academy of Sciences of the United States of America.

Evolution of the D-ribose operon on Escherichia coli B/r

A. Ninfa, D. Hazuda, M. Abou-Sabé, 1982, Journal of bacteriology.

Is acetyl phosphate a global signal in Escherichia coli?

A. Ninfa, J. Stock, A. Ninfa, 1993, Journal of bacteriology.

Physiological role of the GlnK signal transduction protein of Escherichia coli: survival of nitrogen starvation

T. Blauwkamp, A. Ninfa, Timothy A Blauwkamp, 2002, Molecular microbiology.

PII signal transduction proteins: sensors of alpha-ketoglutarate that regulate nitrogen metabolism.

A. Ninfa, P. Jiang, 2005, Current opinion in microbiology.

Functional dissection of the dimerization and enzymatic activities of Escherichia coli nitrogen regulator II and their regulation by the PII protein.

A. Ninfa, P. Jiang, M. R. Atkinson, 2000, Biochemistry.

Hysteresis vs. Graded Responses: The Connections Make All the Difference

Avraham E Mayo, A. Ninfa, A. Mayo, 2004, Science's STKE.

Identification of the site of autophosphorylation of the bacterial protein kinase/phosphatase NRII.

A. Ninfa, R. Bennett, 1991, The Journal of biological chemistry.

Mutational analysis of the bacterial signal-transducing protein kinase/phosphatase nitrogen regulator II (NRII or NtrB)

A. Ninfa, M. R. Atkinson, 1993, Journal of bacteriology.

Mutations Altering the N-Terminal Receiver Domain of NRI (NtrC) That Prevent Dephosphorylation by the NRII-PII Complex in Escherichia coli

A. Ninfa, A. Pioszak, 2004, Journal of bacteriology.

Action of prokaryotic enhancer over a distance does not require continued presence of promoter-bound sigma54 subunit.

A. Ninfa, Ye V Liu, V. Studitsky, 2002, Nucleic acids research.

Role of phosphorylated metabolic intermediates in the regulation of glutamine synthetase synthesis in Escherichia coli

A. Ninfa, M. R. Atkinson, B. Wanner, 1992, Journal of bacteriology.

Structure/function analysis of the PII signal transduction protein of Escherichia coli: genetic separation of interactions with protein receptors

A. Ninfa, P. Jiang, M. R. Atkinson, 1997, Journal of bacteriology.

Mutational Analysis oftheBacterial Signal-Transducing Protein Kinase/Phosphatase

A. Ninfa, 1993 .

Preliminary X-ray diffraction analysis of crystals of the PII protein from Escherichia coli.

A. Ninfa, B. Edwards, J. Zhang, 1994, Journal of molecular biology.

and Alexander Escherichia coli GlnK Signal Transduction Proteins in Context-Dependent Functions of the PII and

T. Blauwkamp, A. Ninfa, M. R. Atkinson, 2002 .

Genetic and Biochemical Analysis of Phosphatase Activity of Escherichia coli NRII (NtrB) and Its Regulation by the PII Signal Transduction Protein

A. Ninfa, A. Pioszak, 2003, Journal of bacteriology.

Purification, Characterization, and Reconstitution of DNA-dependent RNA Polymerases from Caulobacter crescentus*

A. Ninfa, A. Benson, A. Newton, 1997, The Journal of Biological Chemistry.

Enzymological characterization of the signal-transducing uridylyltransferase/uridylyl-removing enzyme (EC 2.7.7.59) of Escherichia coli and its interaction with the PII protein.

A. Ninfa, P. Jiang, J. Peliska, 1998, Biochemistry.

Asymmetry in the autophosphorylation of the two-component regulatory system transmitter protein nitrogen regulator II of Escherichia coli.

A. Ninfa, P. Jiang, J. Peliska, 2000, Biochemistry.

Protein phosphorylation and the regulation of cellular processes by the homologous two-component regulatory systems of bacteria.

A. Ninfa, 1991, Genetic engineering.

Mechanism of autophosphorylation of Escherichia coli nitrogen regulator II (NRII or NtrB): trans-phosphorylation between subunits

A. Ninfa, M. R. Atkinson, E. Kamberov, 1993, Journal of bacteriology.

The regulation of Escherichia coli glutamine synthetase revisited: role of 2-ketoglutarate in the regulation of glutamine synthetase adenylylation state.

A. Ninfa, P. Jiang, J. Peliska, 1998, Biochemistry.

Effect of mutations in Escherichia coli glnL (ntrB), encoding nitrogen regulator II (NRII or NtrB), on the phosphatase activity involved in bacterial nitrogen regulation.

A. Ninfa, M. R. Atkinson, E. Kamberov, 1994, The Journal of biological chemistry.

Synthetic networks: oscillators and toggle switches for Escherichia coli.

Nicolas Perry, A. Ninfa, Nicolas Perry, 2012, Methods in molecular biology.

Characterization oftheRegulon Controlled bytheLeucine- Responsive Regulatory Protein inEscherichia coli

A. Ninfa, R. Matthews, 1992 .

Characterization of the GlnK protein of Escherichia coli

A. Ninfa, M. R. Atkinson, Mariette R. Atkinson, 1999, Molecular microbiology.

Crosstalk between bacterial chemotaxis signal transduction proteins and regulators of transcription of the Ntr regulon: evidence that nitrogen assimilation and chemotaxis are controlled by a common phosphotransfer mechanism.

A. Ninfa, A. Lupas, J. Stock, 1988, Proceedings of the National Academy of Sciences of the United States of America.

Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli

A. Ninfa, M. Savageau, M. R. Atkinson, 2003, Cell.

Building biological memory by linking positive feedback loops

Daniel B. Forger, A. Ninfa, M. R. Atkinson, 2009, Proceedings of the National Academy of Sciences.

The robustness of the Escherichia coli signal-transducing UTase/UR-PII covalent modification cycle to variation in the PII concentration requires very strong inhibition of the UTase activity of UTase/UR by glutamine.

A. Ninfa, P. Jiang, M. R. Atkinson, 2012, Biochemistry.

A systems theory with retroactivity: Application to transcriptional modules

Domitilla Del Vecchio, Eduardo D. Sontag, A. J. Ninfa, 2008, 2008 American Control Conference.

Sensation and Signaling of α-Ketoglutarate and Adenylylate Energy Charge by the Escherichia coli PII Signal Transduction Protein Require Cooperation of the Three Ligand-Binding Sites within the PII Trimer†

A. Ninfa, P. Jiang, 2009, Biochemistry.