PMID-sentid	Pub_year	Sent_text	comp_official_name	comp_offset	protein_name	organism	prot_offset
21290715-5	2001	In Escherichia coli, for example, they involve the oxygen-sensing activities of Fnr and the ArcA/ArcB system (51).	Oxygen	51-57	arginine deiminase	Escherichia coli	92-96
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Histidine	159-162	arginine deiminase	Escherichia coli	148-152
11123679-1	2000	The Escherichia coli cydAB operon, encoding the subunits of the high-affinity cytochrome d oxidase, is maximally transcribed in microaerobiosis as a result of the combined action of the oxygen-responsive regulators Fnr and ArcA.	Oxygen	186-192	arginine deiminase	Escherichia coli	223-227
11123679-7	2000	According to this model, ArcA-P plays a central role in cydAB regulation by antagonizing H-NS repression of cydAB transcription when oxygen becomes limiting.	Oxygen	133-139	arginine deiminase	Escherichia coli	25-29
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Histidine	159-162	arginine deiminase	Escherichia coli	246-250
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Aspartic Acid	170-173	arginine deiminase	Escherichia coli	148-152
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Aspartic Acid	170-173	arginine deiminase	Escherichia coli	246-250
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Histidine	181-184	arginine deiminase	Escherichia coli	148-152
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Histidine	181-184	arginine deiminase	Escherichia coli	246-250
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Aspartic Acid	192-195	arginine deiminase	Escherichia coli	148-152
10585483-4	1999	ArcB is a tripartite kinase, possessing a primary transmitter, a receiver, and a secondary transmitter domain that catalyzes the phosphorylation of ArcA via a His --> Asp --> His --> Asp phosphorelay, as well as the dephosphorylation of ArcA-P by a reverse phosphorelay.	Aspartic Acid	192-195	arginine deiminase	Escherichia coli	246-250
10585483-5	1999	When ArcA and ArcB were incubated with ATP, the peak levels of phosphorylated proteins increased in the presence of the fermentation metabolites D-lactate, acetate, or pyruvate.	Adenosine Triphosphate	39-42	arginine deiminase	Escherichia coli	5-9
10585483-5	1999	When ArcA and ArcB were incubated with ATP, the peak levels of phosphorylated proteins increased in the presence of the fermentation metabolites D-lactate, acetate, or pyruvate.	Lactic Acid	145-154	arginine deiminase	Escherichia coli	5-9
10585483-5	1999	When ArcA and ArcB were incubated with ATP, the peak levels of phosphorylated proteins increased in the presence of the fermentation metabolites D-lactate, acetate, or pyruvate.	Acetates	156-163	arginine deiminase	Escherichia coli	5-9
10585483-5	1999	When ArcA and ArcB were incubated with ATP, the peak levels of phosphorylated proteins increased in the presence of the fermentation metabolites D-lactate, acetate, or pyruvate.	Pyruvic Acid	168-176	arginine deiminase	Escherichia coli	5-9
10482502-10	1999	Regulation studies with a dctA-lacZ (f428-lacZ) transcriptional fusion showed that dctA is subject to cyclic AMP receptor protein (CRP)-dependent catabolite repression and ArcA-mediated anaerobic repression and is weakly induced by the DcuS-DcuR system in response to C(4)-dicarboxylates and citrate.	dcta	83-87	arginine deiminase	Escherichia coli	172-176
10482502-10	1999	Regulation studies with a dctA-lacZ (f428-lacZ) transcriptional fusion showed that dctA is subject to cyclic AMP receptor protein (CRP)-dependent catabolite repression and ArcA-mediated anaerobic repression and is weakly induced by the DcuS-DcuR system in response to C(4)-dicarboxylates and citrate.	c(4)-dicarboxylates	268-287	arginine deiminase	Escherichia coli	172-176
10482502-10	1999	Regulation studies with a dctA-lacZ (f428-lacZ) transcriptional fusion showed that dctA is subject to cyclic AMP receptor protein (CRP)-dependent catabolite repression and ArcA-mediated anaerobic repression and is weakly induced by the DcuS-DcuR system in response to C(4)-dicarboxylates and citrate.	Citric Acid	292-299	arginine deiminase	Escherichia coli	172-176
9830034-2	1998	Under those conditions, the tripartite sensor kinase ArcB undergoes autophosphorylation at the expense of ATP and subsequently transphosphorylates its cognate response regulator ArcA through a His --> Asp --> His --> Asp phosphorelay pathway.	Histidine	193-196	arginine deiminase	Escherichia coli	178-182
9880556-7	1999	In vitro gel-shift experiments demonstrated direct binding of the promoter DNA to IHF and ArcA-P. Mutant analysis indicated that cross-induction of the glc operon by acetate is mediated by the GlcC protein that recognizes the compound as an alternative effector.	Glucose	152-155	arginine deiminase	Escherichia coli	90-94
9880556-7	1999	In vitro gel-shift experiments demonstrated direct binding of the promoter DNA to IHF and ArcA-P. Mutant analysis indicated that cross-induction of the glc operon by acetate is mediated by the GlcC protein that recognizes the compound as an alternative effector.	Acetates	166-173	arginine deiminase	Escherichia coli	90-94
9830034-2	1998	Under those conditions, the tripartite sensor kinase ArcB undergoes autophosphorylation at the expense of ATP and subsequently transphosphorylates its cognate response regulator ArcA through a His --> Asp --> His --> Asp phosphorelay pathway.	Aspartic Acid	204-207	arginine deiminase	Escherichia coli	178-182
9830034-2	1998	Under those conditions, the tripartite sensor kinase ArcB undergoes autophosphorylation at the expense of ATP and subsequently transphosphorylates its cognate response regulator ArcA through a His --> Asp --> His --> Asp phosphorelay pathway.	Histidine	215-218	arginine deiminase	Escherichia coli	178-182
9830034-2	1998	Under those conditions, the tripartite sensor kinase ArcB undergoes autophosphorylation at the expense of ATP and subsequently transphosphorylates its cognate response regulator ArcA through a His --> Asp --> His --> Asp phosphorelay pathway.	Aspartic Acid	226-229	arginine deiminase	Escherichia coli	178-182
9683496-4	1998	Results of recent in vitro studies revealed multistep His-to-Asp phosphotransfer circuitry in the ArcB-ArcA signaling system.	Histidine	54-57	arginine deiminase	Escherichia coli	103-107
9683496-4	1998	Results of recent in vitro studies revealed multistep His-to-Asp phosphotransfer circuitry in the ArcB-ArcA signaling system.	Aspartic Acid	61-64	arginine deiminase	Escherichia coli	103-107
9683496-7	1998	Nonetheless, the ArcB mutant lacking this crucial His-717 site does not necessarily exhibit a null phenotype with respect to ArcB-ArcA signaling.	Histidine	50-53	arginine deiminase	Escherichia coli	130-134
9639597-0	1998	Functional citric acid cycle in an arcA mutant of Escherichia coli during growth with nitrate under anoxic conditions.	Citric Acid	11-22	arginine deiminase	Escherichia coli	35-39
9639597-0	1998	Functional citric acid cycle in an arcA mutant of Escherichia coli during growth with nitrate under anoxic conditions.	Nitrates	86-93	arginine deiminase	Escherichia coli	35-39
9639597-4	1998	In an arcA mutant devoid of the transcriptional regulator ArcA, glycerol was completely oxidized with nitrate as an electron acceptor, demonstrating derepression and function of the complete pathway.	Glycerol	64-72	arginine deiminase	Escherichia coli	6-10
9639597-4	1998	In an arcA mutant devoid of the transcriptional regulator ArcA, glycerol was completely oxidized with nitrate as an electron acceptor, demonstrating derepression and function of the complete pathway.	Glycerol	64-72	arginine deiminase	Escherichia coli	58-62
9639597-4	1998	In an arcA mutant devoid of the transcriptional regulator ArcA, glycerol was completely oxidized with nitrate as an electron acceptor, demonstrating derepression and function of the complete pathway.	Nitrates	102-109	arginine deiminase	Escherichia coli	6-10
9639597-4	1998	In an arcA mutant devoid of the transcriptional regulator ArcA, glycerol was completely oxidized with nitrate as an electron acceptor, demonstrating derepression and function of the complete pathway.	Nitrates	102-109	arginine deiminase	Escherichia coli	58-62
9639597-5	1998	Glucose, on the other hand, was excreted mostly as acetate by the wild-type and by the arcA mutant.	Glucose	0-7	arginine deiminase	Escherichia coli	87-91
9639597-5	1998	Glucose, on the other hand, was excreted mostly as acetate by the wild-type and by the arcA mutant.	Acetates	51-58	arginine deiminase	Escherichia coli	87-91
9798786-9	1998	Moreover, an increase of DCCD-inhibited H+ efflux by added K+, as well as the characteristics of DCCD-sensitive H(+)-K(+)-exchange found in a parent strain, were lost in the arcA mutant with a defective Arc system, suggesting a repression of enzymes in respiratory pathways.	Dicyclohexylcarbodiimide	25-29	arginine deiminase	Escherichia coli	174-178
9798786-9	1998	Moreover, an increase of DCCD-inhibited H+ efflux by added K+, as well as the characteristics of DCCD-sensitive H(+)-K(+)-exchange found in a parent strain, were lost in the arcA mutant with a defective Arc system, suggesting a repression of enzymes in respiratory pathways.	Dicyclohexylcarbodiimide	97-101	arginine deiminase	Escherichia coli	174-178
9702339-4	1998	The K(+)-uptake by the arcA mutant is also inhibited by N,N"-dicyclohexylcarbodiimide and has a variable stoichiometry of N,N"-dicyclohexylcarbodiimide-sensitive ion fluxes and does not significantly change in the presence of valinomycin and with varying temperature, whereas the intracellular activity of K+ ions is lower.	Dicyclohexylcarbodiimide	56-85	arginine deiminase	Escherichia coli	23-27
9702339-4	1998	The K(+)-uptake by the arcA mutant is also inhibited by N,N"-dicyclohexylcarbodiimide and has a variable stoichiometry of N,N"-dicyclohexylcarbodiimide-sensitive ion fluxes and does not significantly change in the presence of valinomycin and with varying temperature, whereas the intracellular activity of K+ ions is lower.	Dicyclohexylcarbodiimide	122-151	arginine deiminase	Escherichia coli	23-27
9702339-4	1998	The K(+)-uptake by the arcA mutant is also inhibited by N,N"-dicyclohexylcarbodiimide and has a variable stoichiometry of N,N"-dicyclohexylcarbodiimide-sensitive ion fluxes and does not significantly change in the presence of valinomycin and with varying temperature, whereas the intracellular activity of K+ ions is lower.	Valinomycin	226-237	arginine deiminase	Escherichia coli	23-27
9702339-5	1998	The Arc-system for the control of synthesis of respiratory enzymes in E. coli participates in the regulation of the K(+)-transporting TrkA system, which directly interacts with F0F1 H-ATPasa; this system in the arcA mutant operates independent of F0F1 and interacts with the latter by mediation of the proton gradient.	atpasa	184-190	arginine deiminase	Escherichia coli	211-215
9286997-2	1997	Under anoxic or environmentally reducing conditions, the sensor kinase (ArcB) is stimulated to autophosphorylate at the expense of ATP and subsequently transphosphorylates the response regulator (ArcA).	Adenosine Triphosphate	131-134	arginine deiminase	Escherichia coli	196-200
9514749-6	1998	Electrophoretic mobility shift assays were used to demonstrate specific binding of purified ArcA protein and a purified and phosphorylated oligohistidine-tagged ArcA (His6-ArcA) to a DNA fragment containing the PY promoter region.	oligohistidine	139-153	arginine deiminase	Escherichia coli	161-165
9514749-6	1998	Electrophoretic mobility shift assays were used to demonstrate specific binding of purified ArcA protein and a purified and phosphorylated oligohistidine-tagged ArcA (His6-ArcA) to a DNA fragment containing the PY promoter region.	oligohistidine	139-153	arginine deiminase	Escherichia coli	161-165
9244276-4	1997	Furthermore, addition of cyclic AMP to the anaerobic incubation medium completely restored tdc expression in fnr and arcA mutants as well as in strains harboring mutations in the Fnr- and ArcA-dependent pfl gene and the Fnr-regulated glpA and frd genes.	Cyclic AMP	25-35	arginine deiminase	Escherichia coli	117-121
9244276-4	1997	Furthermore, addition of cyclic AMP to the anaerobic incubation medium completely restored tdc expression in fnr and arcA mutants as well as in strains harboring mutations in the Fnr- and ArcA-dependent pfl gene and the Fnr-regulated glpA and frd genes.	Cyclic AMP	25-35	arginine deiminase	Escherichia coli	188-192
9244276-5	1997	These results, taken together with the earlier finding that tdc expression is subject to catabolite repression by intermediary metabolites, strongly suggest that the negative regulatory effects of mutations in the fnr and arcA genes are mediated physiologically due to accumulation of a metabolite(s) which prevents tdc transcription in vivo.	catabolite	89-99	arginine deiminase	Escherichia coli	222-226
8892825-1	1996	ArcA protein bearing an amino-terminal, oligohistidine extension has been purified, and its DNA binding activity has been characterized with or without prior incubation with carbamoyl phosphate.	oligohistidine	40-54	arginine deiminase	Escherichia coli	0-4
9209047-7	1997	DNase I footprinting at the icd promoter revealed a 42-bp ArcA-phosphate-protected region that overlaps the start site of icd transcription.	Phosphates	63-72	arginine deiminase	Escherichia coli	58-62
8892825-1	1996	ArcA protein bearing an amino-terminal, oligohistidine extension has been purified, and its DNA binding activity has been characterized with or without prior incubation with carbamoyl phosphate.	Carbamyl Phosphate	174-193	arginine deiminase	Escherichia coli	0-4
8670822-2	1996	Microcalorimetric and respiratory measurements show that the continued production of TCA cycle enzymes in the (delta)arcA mutant is manifested as an elevated rate of respiration and total metabolic activity during starvation.	Trichloroacetic Acid	85-88	arginine deiminase	Escherichia coli	117-121
8670822-3	1996	The (delta)arcA mutant is severely impaired in surviving prolonged periods of exogenous carbon starvation, a phenotype that can be alleviated by overproducing the superoxide dismutase SodA.	Carbon	88-94	arginine deiminase	Escherichia coli	11-15
8670822-5	1996	We suggest that the ArcA-dependent reduced production of electron donors and the decreased level and activity of the aerobic respiratory apparatus during growth arrest is an integral part of a defense system aimed at avoiding the damaging effects of oxygen radicals and controlling the rate of utilization of endogenous reserves.	Reactive Oxygen Species	250-265	arginine deiminase	Escherichia coli	20-24
7783618-5	1995	The fnr and arcA gene products are required for this oxygen control and each acts to repress sdhC-lacZ expression.	Oxygen	53-59	arginine deiminase	Escherichia coli	12-16
8626281-15	1996	During oxygen-limiting conditions the stationary-phase induction is partially dependent on ArcA.	Oxygen	7-13	arginine deiminase	Escherichia coli	91-95
8626294-0	1996	The complex bet promoters of Escherichia coli: regulation by oxygen (ArcA), choline (BetI), and osmotic stress.	Oxygen	61-67	arginine deiminase	Escherichia coli	69-73
8626294-12	1996	Flanking DNA, presumably on the betT side of the promoter region, appeared to be needed for ArcA-dependent regulation of both promoters.	bett	32-36	arginine deiminase	Escherichia coli	92-96
7565112-8	1995	Therefore, expression of nuo is regulated by O2 and nitrate via ArcA, NarL, FNR and IHF at sites within the -277 region, and by other factors including C4 dicarboxylates at a site between -277 and -899.	Oxygen	45-47	arginine deiminase	Escherichia coli	64-68
7565112-8	1995	Therefore, expression of nuo is regulated by O2 and nitrate via ArcA, NarL, FNR and IHF at sites within the -277 region, and by other factors including C4 dicarboxylates at a site between -277 and -899.	Nitrates	52-59	arginine deiminase	Escherichia coli	64-68
7765507-6	1994	This repression by glucose was obvious in the arcA mutant.	Glucose	19-26	arginine deiminase	Escherichia coli	46-50
7747938-13	1994	ArcA/B and FNR directly respond to O2, FhlA indirectly by decreased levels of formate in the presence of O2.	Oxygen	35-37	arginine deiminase	Escherichia coli	0-4
8132465-7	1994	Results presented here indicate that the increase of sdh and lct expression by nitrate depended on its chemical reduction, which in turn diminished the ArcA-P pool.	Nitrates	79-86	arginine deiminase	Escherichia coli	152-156
7747938-13	1994	ArcA/B and FNR directly respond to O2, FhlA indirectly by decreased levels of formate in the presence of O2.	formic acid	78-85	arginine deiminase	Escherichia coli	0-4
7747938-13	1994	ArcA/B and FNR directly respond to O2, FhlA indirectly by decreased levels of formate in the presence of O2.	Oxygen	105-107	arginine deiminase	Escherichia coli	0-4
1512197-5	1992	When ArcA was incubated in the presence of "ArcB and [gamma-32P]ATP, ArcA acquired radioactivity at the expense of the phosphorylated protein "ArcB-32P.	Phosphorus-32	59-63	arginine deiminase	Escherichia coli	5-9
8460139-2	1993	Diamide, an oxidant that causes the anaerobic biosynthesis of the MnSOD polypeptide and also facilitates insertion of manganese at the active site, was found to anaerobically induce MnSOD in both soxRS and fur arcA fnr strains.	Diamide	0-7	arginine deiminase	Escherichia coli	210-214
8460139-3	1993	Metal chelating agents also caused anaerobic induction of MnSOD in a fur arcA fnr triple mutant; however, this induction of MnSOD and of glucose-6-phosphate dehydrogenase (G6PD) by 1,10-phenanthroline was dependent on an intact soxRS locus.	Metals	0-5	arginine deiminase	Escherichia coli	73-77
8460139-5	1993	These results indicate that (i) both diamide and 1,10-phenanthroline induce the soxRS regulon anaerobically by stimulation of soxS transcription; (ii) diamide, but not metal chelators, also induces MnSOD biosynthesis by a soxRS-independent mechanism, perhaps mediated by effects on fur, arcA, or fnr-mediated repression of sodA; and (iii) the soxRS locus contains a metal-binding component and is responsive to the redox status of the cell.	Diamide	37-44	arginine deiminase	Escherichia coli	287-291
8460139-5	1993	These results indicate that (i) both diamide and 1,10-phenanthroline induce the soxRS regulon anaerobically by stimulation of soxS transcription; (ii) diamide, but not metal chelators, also induces MnSOD biosynthesis by a soxRS-independent mechanism, perhaps mediated by effects on fur, arcA, or fnr-mediated repression of sodA; and (iii) the soxRS locus contains a metal-binding component and is responsive to the redox status of the cell.	1,10-phenanthroline	49-68	arginine deiminase	Escherichia coli	287-291
8460139-5	1993	These results indicate that (i) both diamide and 1,10-phenanthroline induce the soxRS regulon anaerobically by stimulation of soxS transcription; (ii) diamide, but not metal chelators, also induces MnSOD biosynthesis by a soxRS-independent mechanism, perhaps mediated by effects on fur, arcA, or fnr-mediated repression of sodA; and (iii) the soxRS locus contains a metal-binding component and is responsive to the redox status of the cell.	Diamide	151-158	arginine deiminase	Escherichia coli	287-291
8226939-3	1993	In the presence of ATP, the ArcB transmitter module undergoes autophosphorylation and then transfers the phosphoryl group to its own receiver module as well as to the ArcA receiver module.	Adenosine Triphosphate	19-22	arginine deiminase	Escherichia coli	167-171
8226939-5	1993	D-Lactate inhibits the phosphatase activity that removes phosphoaspartate groups from the receiver module in ArcB, and the associated increase in phosphorylation of this module leads to an activation of transphosphorylation of subsequently added phosphohistidine groups on ArcB to the receiver module of ArcA.	Lactic Acid	0-9	arginine deiminase	Escherichia coli	304-308
8226939-5	1993	D-Lactate inhibits the phosphatase activity that removes phosphoaspartate groups from the receiver module in ArcB, and the associated increase in phosphorylation of this module leads to an activation of transphosphorylation of subsequently added phosphohistidine groups on ArcB to the receiver module of ArcA.	beta-aspartyl phosphate	57-73	arginine deiminase	Escherichia coli	304-308
8226939-5	1993	D-Lactate inhibits the phosphatase activity that removes phosphoaspartate groups from the receiver module in ArcB, and the associated increase in phosphorylation of this module leads to an activation of transphosphorylation of subsequently added phosphohistidine groups on ArcB to the receiver module of ArcA.	phosphohistidine	246-262	arginine deiminase	Escherichia coli	304-308
1512197-5	1992	When ArcA was incubated in the presence of "ArcB and [gamma-32P]ATP, ArcA acquired radioactivity at the expense of the phosphorylated protein "ArcB-32P.	Phosphorus-32	59-63	arginine deiminase	Escherichia coli	69-73
1512197-5	1992	When ArcA was incubated in the presence of "ArcB and [gamma-32P]ATP, ArcA acquired radioactivity at the expense of the phosphorylated protein "ArcB-32P.	Adenosine Triphosphate	64-67	arginine deiminase	Escherichia coli	5-9
1512197-5	1992	When ArcA was incubated in the presence of "ArcB and [gamma-32P]ATP, ArcA acquired radioactivity at the expense of the phosphorylated protein "ArcB-32P.	Adenosine Triphosphate	64-67	arginine deiminase	Escherichia coli	69-73
1512197-6	1992	When a limited amount of "ArcB was incubated with excess ArcA and [gamma-32P]ATP, ArcA-32P increased linearly with time.	Phosphorus-32	73-76	arginine deiminase	Escherichia coli	82-86
1512197-6	1992	When a limited amount of "ArcB was incubated with excess ArcA and [gamma-32P]ATP, ArcA-32P increased linearly with time.	Adenosine Triphosphate	77-80	arginine deiminase	Escherichia coli	82-86
1592804-0	1992	Anaerobic induction of pyruvate formate-lyase gene expression is mediated by the ArcA and FNR proteins.	Pyruvic Acid	23-31	arginine deiminase	Escherichia coli	81-85
1885542-1	1991	The Escherichia coli arcA gene product regulates chromosomal gene expression in response to deprivation of oxygen (Arc function; Arc stands for aerobic respiration control) and is required for expression of the F plasmid DNA transfer (tra) genes (Sfr function; Sfr stands for sex factor regulation).	Oxygen	107-113	arginine deiminase	Escherichia coli	21-25
1957353-3	1991	This article reviews the properties of two transcriptional regulators, ArcA and FNR, which control the expression of networks of genes in response to oxygen limitation.	Oxygen	150-156	arginine deiminase	Escherichia coli	71-75
1565612-4	1992	Strains harboring simultaneous mutations in arcA/B and fur expressed sodA-lacZ under anaerobic growth conditions but were still inducible by iron chelators.	Iron	141-145	arginine deiminase	Escherichia coli	44-48
2041478-5	1991	Thus, in addition to the response to the superoxide-mediated oxidative stress which depends on SoxR, two global controls regulate MnSOD expression: ArcA couples MnSOD expression to respiration, and Fur couples it to the intracellular concentration of iron.	Iron	251-255	arginine deiminase	Escherichia coli	148-152
35416487-6	2022	It is known that the global regulators fis and arcA regulate acetate uptake genes in E. coli under glucose conditions.	Acetates	61-68	arginine deiminase	Escherichia coli	47-51
34282894-6	2021	After the deletion of arcA, the resulting strain was employed for the aerobic production of SA.	Succinic Acid	92-94	arginine deiminase	Escherichia coli	22-26
2565334-1	1989	In Escherichia coli, mutations in arcA (dye) or arcB anaerobically derepress the synthesis of a multitude of enzymes of aerobic function, and mutations in arcA or cpxA impair F-pilus formation.	cpxa	163-167	arginine deiminase	Escherichia coli	34-38
35416487-6	2022	It is known that the global regulators fis and arcA regulate acetate uptake genes in E. coli under glucose conditions.	Glucose	99-106	arginine deiminase	Escherichia coli	47-51
2565334-11	1989	The cpxA product, on the other hand, senses the sexual state; absence of the gene function shifts the arcA product to the inactive form for F-pilus synthesis.	cpxa	4-8	arginine deiminase	Escherichia coli	102-106
33785570-4	2021	Here, we comprehensively reveal the fundamental role of global transcriptional regulators FNR, ArcA, and IHF in sustaining translational and metabolic efficiency under glucose fermentative conditions in Escherichia coli By integrating high-throughput gene expression profiles and absolute intracellular metabolite concentrations, we illustrate that these regulators are crucial in maintaining nitrogen homeostasis, govern expression of otherwise unnecessary or hedging genes, and exert tight control on metabolic bottleneck steps.	Glucose	168-175	arginine deiminase	Escherichia coli	95-99
2644240-2	1989	Mutations in arcA (dye) at min 0 relieve this pleiotropic anaerobic repression and render the cell sensitive to the redox dye toluidine blue.	Tolonium Chloride	126-140	arginine deiminase	Escherichia coli	13-17
31177569-0	2019	Deletion of arcA, iclR, and tdcC in Escherichia coli to improve l-threonine production.	Threonine	64-75	arginine deiminase	Escherichia coli	12-16
32721518-2	2020	Here we have shown that, under the conditions of a gradual decrease in dissolved oxygen (dO2), characteristic of batch culture, the global regulatory system ArcB/ArcA can play an important role in the coordinated control of extracellular superoxide and GSH fluxes and their interaction with intracellular antioxidant systems.	Oxygen	81-87	arginine deiminase	Escherichia coli	162-166
32721518-2	2020	Here we have shown that, under the conditions of a gradual decrease in dissolved oxygen (dO2), characteristic of batch culture, the global regulatory system ArcB/ArcA can play an important role in the coordinated control of extracellular superoxide and GSH fluxes and their interaction with intracellular antioxidant systems.	do2	89-92	arginine deiminase	Escherichia coli	162-166
32721518-2	2020	Here we have shown that, under the conditions of a gradual decrease in dissolved oxygen (dO2), characteristic of batch culture, the global regulatory system ArcB/ArcA can play an important role in the coordinated control of extracellular superoxide and GSH fluxes and their interaction with intracellular antioxidant systems.	Superoxides	238-248	arginine deiminase	Escherichia coli	162-166
32721518-2	2020	Here we have shown that, under the conditions of a gradual decrease in dissolved oxygen (dO2), characteristic of batch culture, the global regulatory system ArcB/ArcA can play an important role in the coordinated control of extracellular superoxide and GSH fluxes and their interaction with intracellular antioxidant systems.	Glutathione	253-256	arginine deiminase	Escherichia coli	162-166
32760361-0	2020	Corrigendum: All Three Endogenous Quinone Species of Escherichia coli Are Involved in Controlling the Activity of the Aerobic/Anaerobic Response Regulator ArcA.	quinone	34-41	arginine deiminase	Escherichia coli	155-159
33325149-0	2021	Citrate utilization under anaerobic environment in Escherichia coli is under direct control of Fnr and indirect control of ArcA and Fnr via CitA-CitB system.	Citric Acid	0-7	arginine deiminase	Escherichia coli	123-127
33325149-0	2021	Citrate utilization under anaerobic environment in Escherichia coli is under direct control of Fnr and indirect control of ArcA and Fnr via CitA-CitB system.	cita	140-144	arginine deiminase	Escherichia coli	123-127
33325149-0	2021	Citrate utilization under anaerobic environment in Escherichia coli is under direct control of Fnr and indirect control of ArcA and Fnr via CitA-CitB system.	citb	145-149	arginine deiminase	Escherichia coli	123-127
33325149-7	2021	Deletions of arcA and fnr significantly reduced the growth of Escherichia coli in M9 medium with a citrate carbon source.	m9 medium	82-91	arginine deiminase	Escherichia coli	13-17
33325149-7	2021	Deletions of arcA and fnr significantly reduced the growth of Escherichia coli in M9 medium with a citrate carbon source.	Citric Acid	99-106	arginine deiminase	Escherichia coli	13-17
33325149-7	2021	Deletions of arcA and fnr significantly reduced the growth of Escherichia coli in M9 medium with a citrate carbon source.	Carbon	107-113	arginine deiminase	Escherichia coli	13-17
33325149-8	2021	We conclude that both ArcA and Fnr can indirectly control the citrate utilization via CitA-CitB system, while, Fnr can also directly regulate the expression of citrate fermentation genes in E. coli under anaerobic conditions.	Citric Acid	62-69	arginine deiminase	Escherichia coli	22-26
33325149-8	2021	We conclude that both ArcA and Fnr can indirectly control the citrate utilization via CitA-CitB system, while, Fnr can also directly regulate the expression of citrate fermentation genes in E. coli under anaerobic conditions.	cita	86-90	arginine deiminase	Escherichia coli	22-26
33325149-8	2021	We conclude that both ArcA and Fnr can indirectly control the citrate utilization via CitA-CitB system, while, Fnr can also directly regulate the expression of citrate fermentation genes in E. coli under anaerobic conditions.	citb	91-95	arginine deiminase	Escherichia coli	22-26
32383263-0	2020	Transcription Factor ArcA is a Flux Sensor for the Oxygen Consumption Rate in Escherichia coli.	Oxygen	51-57	arginine deiminase	Escherichia coli	21-25
32383263-5	2020	Therefore, the present study, is focused on the role of the transcription factor ArcA in the oxygen response of E. coli and investigated the relationship between ArcA activity and the oxygen consumption rate.	Oxygen	93-99	arginine deiminase	Escherichia coli	81-85
32383263-5	2020	Therefore, the present study, is focused on the role of the transcription factor ArcA in the oxygen response of E. coli and investigated the relationship between ArcA activity and the oxygen consumption rate.	Oxygen	184-190	arginine deiminase	Escherichia coli	162-166
32383263-8	2020	Although there is no correlation between ArcA activity and dissolved oxygen concentration, a strong negative correlation between ArcA activity and the specific oxygen consumption rate (R2 > 0.93) is observed.	Oxygen	160-166	arginine deiminase	Escherichia coli	129-133
32318559-8	2020	Finally, we have designed a mevalonate (MVA) production system by implementing ArcA overexpression into the pgi-knockout mutant using a mixture of glucose and xylose.	Mevalonic Acid	28-38	arginine deiminase	Escherichia coli	79-83
32318559-8	2020	Finally, we have designed a mevalonate (MVA) production system by implementing ArcA overexpression into the pgi-knockout mutant using a mixture of glucose and xylose.	Glucose	147-154	arginine deiminase	Escherichia coli	79-83
32318559-8	2020	Finally, we have designed a mevalonate (MVA) production system by implementing ArcA overexpression into the pgi-knockout mutant using a mixture of glucose and xylose.	Xylose	159-165	arginine deiminase	Escherichia coli	79-83
32318559-10	2020	In the present study, therefore, we considered to overexpress ArcA, where ArcA overexpression suppresses the TCA cycle, causing the overflow of AcCoA, a precursor of MVA.	Trichloroacetic Acid	109-112	arginine deiminase	Escherichia coli	62-66
32318559-10	2020	In the present study, therefore, we considered to overexpress ArcA, where ArcA overexpression suppresses the TCA cycle, causing the overflow of AcCoA, a precursor of MVA.	Trichloroacetic Acid	109-112	arginine deiminase	Escherichia coli	74-78
32093713-6	2020	RESULTS: The thrL leader regulatory elements were applied to regulate the expression of genes iclR, arcA, cpxR, gadE, fadR and pykF, while the threonine-activating promoters PcysH, PcysJ and PcysD were applied to regulate the expression of gene aspC, resulting in the increase of L-threonine production in an L-threonine producing E. coli strain TWF001.	Threonine	143-152	arginine deiminase	Escherichia coli	100-104
32093713-9	2020	Thirdly, the effect of expression regulation of arcA, cpxR, gadE, pykF and fadR was individually investigated on L-threonine production in TWF001.	Threonine	113-124	arginine deiminase	Escherichia coli	48-52
32093713-10	2020	Finally, using TWF066 as the starting strain, the expression of genes arcA, cpxR, gadE, pykF and fadR was regulated individually or in combination to obtain the best strain for L-threonine production.	Threonine	177-188	arginine deiminase	Escherichia coli	70-74
31177569-3	2019	In this study, how the l-threonine production in an l-threonine producing E. coli TWF001 is controlled by the three regulators ArcA, Cra, and IclR, which control the expression of genes involved in the glycolysis and TCA cycle, has been investigated.	Threonine	23-34	arginine deiminase	Escherichia coli	127-131
31177569-3	2019	In this study, how the l-threonine production in an l-threonine producing E. coli TWF001 is controlled by the three regulators ArcA, Cra, and IclR, which control the expression of genes involved in the glycolysis and TCA cycle, has been investigated.	Threonine	52-63	arginine deiminase	Escherichia coli	127-131
31177569-8	2019	The results suggest that deletion of arcA, iclR, and tdcC could efficiently increase l-threonine production in E. coli.	Threonine	85-96	arginine deiminase	Escherichia coli	37-41
29193870-5	2018	Deletion of arcA, whose gene product is a global transcriptional regulator, was the only modification among those evaluated that significantly decreased acetate under both transient and prolonged oxygen limitation.	Acetates	153-160	arginine deiminase	Escherichia coli	12-16
29193870-5	2018	Deletion of arcA, whose gene product is a global transcriptional regulator, was the only modification among those evaluated that significantly decreased acetate under both transient and prolonged oxygen limitation.	Oxygen	196-202	arginine deiminase	Escherichia coli	12-16
29193870-6	2018	Transcriptome results indicate that the arcA deletion results in an increased expression of the operon involving acs and actP (whose gene products are involved in acetate assimilation and uptake respectively) and some genes in the TCA cycle, thereby promoting increased acetate assimilation.	Acetates	163-170	arginine deiminase	Escherichia coli	40-44
29193870-6	2018	Transcriptome results indicate that the arcA deletion results in an increased expression of the operon involving acs and actP (whose gene products are involved in acetate assimilation and uptake respectively) and some genes in the TCA cycle, thereby promoting increased acetate assimilation.	Trichloroacetic Acid	231-234	arginine deiminase	Escherichia coli	40-44
29193870-6	2018	Transcriptome results indicate that the arcA deletion results in an increased expression of the operon involving acs and actP (whose gene products are involved in acetate assimilation and uptake respectively) and some genes in the TCA cycle, thereby promoting increased acetate assimilation.	Acetates	270-277	arginine deiminase	Escherichia coli	40-44
28923010-4	2017	RESULTS: We observed specific interaction between CpxA and ArcA upon treatment with the aminoglycoside gentamicin using Membrane-Strep-tagged protein interaction experiments (mSPINE).	cpxa	50-54	arginine deiminase	Escherichia coli	59-63
29865993-5	2018	To suppress the accumulation of by-products acetate and glycolate, two genes arcA and aldA were knocked out.	Acetates	44-51	arginine deiminase	Escherichia coli	77-81
29865993-5	2018	To suppress the accumulation of by-products acetate and glycolate, two genes arcA and aldA were knocked out.	glycolic acid	56-65	arginine deiminase	Escherichia coli	77-81
29087312-7	2017	However, the combined positive regulation of the feoABC operon by ArcA and FNR partially antagonized Fur-mediated repression of feoABC under anaerobic conditions, allowing ferrous transport to increase even though Fur is more active.	fur	101-104	arginine deiminase	Escherichia coli	66-70
28923010-4	2017	RESULTS: We observed specific interaction between CpxA and ArcA upon treatment with the aminoglycoside gentamicin using Membrane-Strep-tagged protein interaction experiments (mSPINE).	Aminoglycosides	88-102	arginine deiminase	Escherichia coli	59-63
28923010-4	2017	RESULTS: We observed specific interaction between CpxA and ArcA upon treatment with the aminoglycoside gentamicin using Membrane-Strep-tagged protein interaction experiments (mSPINE).	Gentamicins	103-113	arginine deiminase	Escherichia coli	59-63
28928483-3	2017	Here, we demonstrate that ArcA overexpression in aerobic conditions, results in downregulation of respiratory pathways and enhanced growth rates on glycolytic substrates of E. coli, coinciding with acetate excretion and increased carbon uptake rates.	Acetates	198-205	arginine deiminase	Escherichia coli	26-30
28928483-3	2017	Here, we demonstrate that ArcA overexpression in aerobic conditions, results in downregulation of respiratory pathways and enhanced growth rates on glycolytic substrates of E. coli, coinciding with acetate excretion and increased carbon uptake rates.	Carbon	230-236	arginine deiminase	Escherichia coli	26-30
28270808-8	2017	KgtP was required for aerobic growth on KG, and its expression was repressed by FNR and ArcA under anaerobic conditions.	kgtp	0-4	arginine deiminase	Escherichia coli	88-92
28923010-7	2017	Nevertheless, upon applying shotgun mass spectrometry analysis after treatment with gentamicin, we observed a reduction of ArcA ~ P-dependent protein synthesis and a significant Cpx-dependent alteration in the global proteome profile of E. coli.	Gentamicins	84-94	arginine deiminase	Escherichia coli	123-127
28744786-6	2017	We identified an additional mutation in acs that, together with the arcA mutation, drove an early restructuring of the transcriptional control of central metabolism in S, leading to improved acetate consumption.	Acetates	191-198	arginine deiminase	Escherichia coli	68-72
27656164-0	2016	All Three Endogenous Quinone Species of Escherichia coli Are Involved in Controlling the Activity of the Aerobic/Anaerobic Response Regulator ArcA.	quinone	21-28	arginine deiminase	Escherichia coli	142-146
27878786-0	2016	Enhancing poly(3-hydroxyalkanoate) production in Escherichia coli by the removal of the regulatory gene arcA.	poly(3-hydroxyalkanoate)	10-34	arginine deiminase	Escherichia coli	104-108
27878786-3	2016	In this study we sought to address this challenge by deleting arcA and ompR, two global regulators with the capacity to inhibit the uptake and activation of exogenous fatty acids.	Fatty Acids	167-178	arginine deiminase	Escherichia coli	62-66
27878786-8	2016	Overall, this study demonstrates that arcA is an important target to improve PHA production from fatty acids.	Fatty Acids	97-108	arginine deiminase	Escherichia coli	38-42
28061812-0	2017	Improving the production of acetyl-CoA-derived chemicals in Escherichia coli BL21(DE3) through iclR and arcA deletion.	Acetyl Coenzyme A	28-38	arginine deiminase	Escherichia coli	104-108
27656164-6	2016	In all three "single-quinone" E. coli strains transitions in the activity of ArcB are observed, as evidenced by changes in the level of phosphorylation of the response regulator ArcA, upon depletion/readmission of oxygen.	quinone	21-28	arginine deiminase	Escherichia coli	178-182
27656164-6	2016	In all three "single-quinone" E. coli strains transitions in the activity of ArcB are observed, as evidenced by changes in the level of phosphorylation of the response regulator ArcA, upon depletion/readmission of oxygen.	Oxygen	214-220	arginine deiminase	Escherichia coli	178-182
26932900-0	2016	Erratum to: Deletion of arcA increased the production of acetyl-CoA-derived chemicals in recombinant Escherichia coli.	Acetyl Coenzyme A	57-67	arginine deiminase	Escherichia coli	24-28
27485110-6	2016	Besides, it was found that the transcription of arcA (encodes the redox-dependent transcriptional activators ArcA that positively regulates the transcription of pyruvate formate-lyase) was down-regulated in the presence of Rubisco.	Pyruvic Acid	161-169	arginine deiminase	Escherichia coli	48-52
27485110-6	2016	Besides, it was found that the transcription of arcA (encodes the redox-dependent transcriptional activators ArcA that positively regulates the transcription of pyruvate formate-lyase) was down-regulated in the presence of Rubisco.	Pyruvic Acid	161-169	arginine deiminase	Escherichia coli	109-113
26444867-4	2016	Unexpectedly the mutant had a higher energy efficiency, indicated by a much lower rate of oxygen consumption, under glucose-limited conditions, caused by the deletion of the transcription factors IclR and ArcA.	Oxygen	90-96	arginine deiminase	Escherichia coli	205-209
26444867-4	2016	Unexpectedly the mutant had a higher energy efficiency, indicated by a much lower rate of oxygen consumption, under glucose-limited conditions, caused by the deletion of the transcription factors IclR and ArcA.	Glucose	116-123	arginine deiminase	Escherichia coli	205-209
25268772-2	2014	Although it is known that the global transcriptional regulators FNR and ArcA are involved in oxygen response it is unclear how they interplay in the regulation of ETC enzymes under micro-aerobic chemostat conditions.	Oxygen	93-99	arginine deiminase	Escherichia coli	72-76
26895825-6	2016	Evolved strains acquired a few additional genetic changes besides the trkH, kdpD and arcA mutations, which might increase the scavenging of organophosphates (phnE (+), lapB, and rseP) and the resistance to oxidative (rsxC) and acetic acid stresses (e14(-)/icd (+)).	Organophosphates	140-156	arginine deiminase	Escherichia coli	85-89
26895825-6	2016	Evolved strains acquired a few additional genetic changes besides the trkH, kdpD and arcA mutations, which might increase the scavenging of organophosphates (phnE (+), lapB, and rseP) and the resistance to oxidative (rsxC) and acetic acid stresses (e14(-)/icd (+)).	phne	158-162	arginine deiminase	Escherichia coli	85-89
26895825-6	2016	Evolved strains acquired a few additional genetic changes besides the trkH, kdpD and arcA mutations, which might increase the scavenging of organophosphates (phnE (+), lapB, and rseP) and the resistance to oxidative (rsxC) and acetic acid stresses (e14(-)/icd (+)).	2-amino-4-phosphonobutyric acid	168-172	arginine deiminase	Escherichia coli	85-89
26895825-6	2016	Evolved strains acquired a few additional genetic changes besides the trkH, kdpD and arcA mutations, which might increase the scavenging of organophosphates (phnE (+), lapB, and rseP) and the resistance to oxidative (rsxC) and acetic acid stresses (e14(-)/icd (+)).	rsxc	217-221	arginine deiminase	Escherichia coli	85-89
26895825-6	2016	Evolved strains acquired a few additional genetic changes besides the trkH, kdpD and arcA mutations, which might increase the scavenging of organophosphates (phnE (+), lapB, and rseP) and the resistance to oxidative (rsxC) and acetic acid stresses (e14(-)/icd (+)).	Acetic Acid	227-238	arginine deiminase	Escherichia coli	85-89
26895825-8	2016	The spread of these mutant strains might give the ancestral strain time to accumulate up to five genetic changes (phnE (+) arcA rsxC crfC e14(-)/icd (+)), which allowed growth on glucose and organophosphates, and provided a long-term survival.	Glucose	179-186	arginine deiminase	Escherichia coli	123-127
26895825-8	2016	The spread of these mutant strains might give the ancestral strain time to accumulate up to five genetic changes (phnE (+) arcA rsxC crfC e14(-)/icd (+)), which allowed growth on glucose and organophosphates, and provided a long-term survival.	Organophosphates	191-207	arginine deiminase	Escherichia coli	123-127
26362674-0	2016	Deletion of arcA increased the production of acetyl-CoA-derived chemicals in recombinant Escherichia coli.	Acetyl Coenzyme A	45-55	arginine deiminase	Escherichia coli	12-16
26362674-4	2016	RESULTS: The arcA gene of E. coli BL21(DE3) was knocked out, and the production of phloroglucinol (PG) and 3-hydroxypropionate (3HP), both derived from acetyl-CoA, were used to evaluate its effect.	Phloroglucinol	83-97	arginine deiminase	Escherichia coli	13-17
26362674-4	2016	RESULTS: The arcA gene of E. coli BL21(DE3) was knocked out, and the production of phloroglucinol (PG) and 3-hydroxypropionate (3HP), both derived from acetyl-CoA, were used to evaluate its effect.	Phloroglucinol	99-101	arginine deiminase	Escherichia coli	13-17
26362674-4	2016	RESULTS: The arcA gene of E. coli BL21(DE3) was knocked out, and the production of phloroglucinol (PG) and 3-hydroxypropionate (3HP), both derived from acetyl-CoA, were used to evaluate its effect.	hydracrylic acid	107-126	arginine deiminase	Escherichia coli	13-17
26362674-4	2016	RESULTS: The arcA gene of E. coli BL21(DE3) was knocked out, and the production of phloroglucinol (PG) and 3-hydroxypropionate (3HP), both derived from acetyl-CoA, were used to evaluate its effect.	Acetyl Coenzyme A	152-162	arginine deiminase	Escherichia coli	13-17
26362674-5	2016	The arcA mutants had higher cell yields and higher glucose utilization efficiencies than the corresponding control strains, and the productions of PG and 3HP were 0.92 g/l and 0.27 g/l, respectively; more than twice that of the control strains.	Glucose	51-58	arginine deiminase	Escherichia coli	4-8
26362674-6	2016	Furthermore, arcA knockout also showed significant repression on formation of acetate, the major byproduct in fermentation.	Acetates	78-85	arginine deiminase	Escherichia coli	13-17
26362674-7	2016	Acetate concentrations were decreased 69.4 % and 87 % by arcA knockout during the production of PG and 3HP, respectively.	Acetates	0-7	arginine deiminase	Escherichia coli	57-61
26362674-7	2016	Acetate concentrations were decreased 69.4 % and 87 % by arcA knockout during the production of PG and 3HP, respectively.	Phloroglucinol	96-98	arginine deiminase	Escherichia coli	57-61
26362674-7	2016	Acetate concentrations were decreased 69.4 % and 87 % by arcA knockout during the production of PG and 3HP, respectively.	hydracrylic acid	103-106	arginine deiminase	Escherichia coli	57-61
26362674-8	2016	CONCLUSIONS: The arcA gene knockout is a solution to acetate overflow and may improve production of a wide range of acetyl-CoA-derived metabolites.	Acetates	53-60	arginine deiminase	Escherichia coli	17-21
26362674-8	2016	CONCLUSIONS: The arcA gene knockout is a solution to acetate overflow and may improve production of a wide range of acetyl-CoA-derived metabolites.	Acetyl Coenzyme A	116-126	arginine deiminase	Escherichia coli	17-21
25216582-9	2014	Cells grew further to 6.30 g/l CDW containing 91 % PHB when oxygen-responsive transcription factor ArcA (arcA) was deleted in the same recombinant E. coli S17-1.	Oxygen	60-66	arginine deiminase	Escherichia coli	99-103
25216582-9	2014	Cells grew further to 6.30 g/l CDW containing 91 % PHB when oxygen-responsive transcription factor ArcA (arcA) was deleted in the same recombinant E. coli S17-1.	Oxygen	60-66	arginine deiminase	Escherichia coli	105-109
25268772-9	2014	The model shows that experimentally observed, qualitatively different behaviour of the ubiquinone redox state and the ArcA activity profile in the micro-aerobic range for different experimental conditions can emerge from a single network structure.	Ubiquinone	87-97	arginine deiminase	Escherichia coli	118-122
23928331-6	2013	In addition, supplementation of the storage culture medium with glucose and substrate (arginine) significantly stabilized the recombinant arginine deiminase producer.	Glucose	64-71	arginine deiminase	Escherichia coli	138-156
25161193-8	2014	IMPORTANCE: In Escherichia coli, the response regulator ArcA maintains homeostasis of redox carriers under O2-limiting conditions through a comprehensive repression of carbon oxidation pathways that require aerobic respiration to recycle redox carriers.	Oxygen	107-109	arginine deiminase	Escherichia coli	56-60
25161193-8	2014	IMPORTANCE: In Escherichia coli, the response regulator ArcA maintains homeostasis of redox carriers under O2-limiting conditions through a comprehensive repression of carbon oxidation pathways that require aerobic respiration to recycle redox carriers.	Carbon	168-174	arginine deiminase	Escherichia coli	56-60
24475268-9	2014	Phosphorylation of ArcA, the regulator of the two-component system ArcBA, besides Fnr the main transcription factor for the response towards different oxygen concentrations, was studied.	Oxygen	151-157	arginine deiminase	Escherichia coli	19-23
24633370-5	2014	Fourfold reduction of acetate excretion (2 vs. 8 % from total carbon) at fastest growth compared to wild type was achieved by deleting the genes responsible for inactivation of acetyl-CoA synthetase protein (pka) and TCA cycle regulator arcA.	Acetates	22-29	arginine deiminase	Escherichia coli	237-241
24763195-3	2014	When E. coli encounters environments with different O2 availabilities, the expression of the genes encoding the alternative terminal oxidases, the cydAB and cyoABCDE operons, are regulated by two O2-responsive transcription factors, ArcA (an indirect O2 sensor) and FNR (a direct O2 sensor).	Oxygen	52-54	arginine deiminase	Escherichia coli	233-237
24763195-3	2014	When E. coli encounters environments with different O2 availabilities, the expression of the genes encoding the alternative terminal oxidases, the cydAB and cyoABCDE operons, are regulated by two O2-responsive transcription factors, ArcA (an indirect O2 sensor) and FNR (a direct O2 sensor).	Oxygen	196-198	arginine deiminase	Escherichia coli	233-237
24763195-3	2014	When E. coli encounters environments with different O2 availabilities, the expression of the genes encoding the alternative terminal oxidases, the cydAB and cyoABCDE operons, are regulated by two O2-responsive transcription factors, ArcA (an indirect O2 sensor) and FNR (a direct O2 sensor).	Oxygen	196-198	arginine deiminase	Escherichia coli	233-237
24763195-4	2014	It has been suggested that O2-consumption by the terminal oxidases located at the cytoplasmic membrane significantly affects the activities of ArcA and FNR in the bacterial nucleoid.	Oxygen	27-29	arginine deiminase	Escherichia coli	143-147
24763195-5	2014	In this study, an agent-based modeling approach has been taken to spatially simulate the uptake and consumption of O2 by E. coli and the consequent modulation of ArcA and FNR activities based on experimental data obtained from highly controlled chemostat cultures.	Oxygen	115-117	arginine deiminase	Escherichia coli	162-166
24116043-5	2013	We report the relationship between growth, quinone content, ubiquinone redox state, the level of ArcA phosphorylation, and the level of ArcA-dependent gene expression, in a number of mutants of E. coli with specific alterations in their set of quinones, under a range of physiological conditions.	Quinones	244-252	arginine deiminase	Escherichia coli	136-140
24116043-7	2013	Also, in a mutant strain that only contains demethylmenaquinone, the extent of ArcA phosphorylation can be modulated by the oxygen supply rate, which shows that demethylmenaquinone can also inactivate ArcB in its oxidized form.	demethylmenaquinone	44-63	arginine deiminase	Escherichia coli	79-83
24116043-7	2013	Also, in a mutant strain that only contains demethylmenaquinone, the extent of ArcA phosphorylation can be modulated by the oxygen supply rate, which shows that demethylmenaquinone can also inactivate ArcB in its oxidized form.	Oxygen	124-130	arginine deiminase	Escherichia coli	79-83
24116043-7	2013	Also, in a mutant strain that only contains demethylmenaquinone, the extent of ArcA phosphorylation can be modulated by the oxygen supply rate, which shows that demethylmenaquinone can also inactivate ArcB in its oxidized form.	demethylmenaquinone	161-180	arginine deiminase	Escherichia coli	79-83
24116043-8	2013	Furthermore, in batch cultures of a strain that contains ubiquinone as its only quinone species, we observed that the ArcA phosphorylation level closely followed the redox state of the ubiquinone/ubiquinol pool, much more strictly than it does in the wild type strain.	Ubiquinone	57-67	arginine deiminase	Escherichia coli	118-122
24116043-8	2013	Furthermore, in batch cultures of a strain that contains ubiquinone as its only quinone species, we observed that the ArcA phosphorylation level closely followed the redox state of the ubiquinone/ubiquinol pool, much more strictly than it does in the wild type strain.	quinone	60-67	arginine deiminase	Escherichia coli	118-122
24116043-8	2013	Furthermore, in batch cultures of a strain that contains ubiquinone as its only quinone species, we observed that the ArcA phosphorylation level closely followed the redox state of the ubiquinone/ubiquinol pool, much more strictly than it does in the wild type strain.	Ubiquinone	185-195	arginine deiminase	Escherichia coli	118-122
24116043-8	2013	Furthermore, in batch cultures of a strain that contains ubiquinone as its only quinone species, we observed that the ArcA phosphorylation level closely followed the redox state of the ubiquinone/ubiquinol pool, much more strictly than it does in the wild type strain.	ubiquinol	196-205	arginine deiminase	Escherichia coli	118-122
23928331-6	2013	In addition, supplementation of the storage culture medium with glucose and substrate (arginine) significantly stabilized the recombinant arginine deiminase producer.	Arginine	87-95	arginine deiminase	Escherichia coli	138-156
24146625-0	2013	The bacterial response regulator ArcA uses a diverse binding site architecture to regulate carbon oxidation globally.	Carbon	91-97	arginine deiminase	Escherichia coli	33-37
23563322-7	2013	Furthermore, the combined knockouts of guaB, pyrD, serA, fnr, arcA, or arcB genes, which are involved with anaerobic transcription regulation, enhanced D-lactate overproduction.	Lactic Acid	154-161	arginine deiminase	Escherichia coli	62-66
24146625-7	2013	We propose that this plasticity in ArcA binding site architecture provides both an efficient means of encoding binding sites for ArcA, sigma(70)-RNAP and perhaps other transcription factors within the same narrow sequence space and an effective mechanism for global control of carbon metabolism to maintain redox homeostasis.	Carbon	277-283	arginine deiminase	Escherichia coli	35-39
24146625-7	2013	We propose that this plasticity in ArcA binding site architecture provides both an efficient means of encoding binding sites for ArcA, sigma(70)-RNAP and perhaps other transcription factors within the same narrow sequence space and an effective mechanism for global control of carbon metabolism to maintain redox homeostasis.	Carbon	277-283	arginine deiminase	Escherichia coli	129-133
23065979-0	2012	ArcA and AppY antagonize IscR repression of hydrogenase-1 expression under anaerobic conditions, revealing a novel mode of O2 regulation of gene expression in Escherichia coli.	Oxygen	123-125	arginine deiminase	Escherichia coli	0-4
22008943-2	2011	The objective of the present research is to clarify the metabolic regulation mechanism on how the culture environment, such as oxygen level, affects the cell metabolism in relation to gene expressions, enzyme activities and fluxes via global regulators such as Fnr and ArcA/B systems.	Oxygen	127-133	arginine deiminase	Escherichia coli	269-273
22790675-0	2012	Metabolic regulation analysis of wild-type and arcA mutant Escherichia coli under nitrate conditions using different levels of omics data.	Nitrates	82-89	arginine deiminase	Escherichia coli	47-51
22870390-8	2012	One of these transcripts, ndh, encodes a major component of the aerobic respiratory chain and is regulated by oxygen-responsive TFs ArcA and FNR.	Oxygen	110-116	arginine deiminase	Escherichia coli	132-136
22623420-8	2012	Moreover, our data indicate that ArcA is required for regulation of cytochrome c proteins, and the menaquinone level may play a role in regulating ArcA as in E. coli.	Vitamin K 2	99-110	arginine deiminase	Escherichia coli	147-151
22752906-8	2012	ArcA was identified as the dominant repressor, with the major repression occurring at 0-4% oxygen.	Oxygen	91-97	arginine deiminase	Escherichia coli	0-4
22009573-1	2012	Deletion of both iclR and arcA in E. coli profoundly alters the central metabolic fluxes and decreases acetate excretion by 70%.	Acetates	103-110	arginine deiminase	Escherichia coli	26-30
23029459-3	2012	Cross-talk between E. coli FadR and the ArcA-ArcB oxygen-responsive two-component system was observed that resulted in diverse regulation of certain fad regulon beta-oxidation genes.	Oxygen	50-56	arginine deiminase	Escherichia coli	40-44
22008943-6	2011	The downregulation of arcA caused lpdA and aceE, F to be upregulated where the flux through PDHc increased.	lpda	34-38	arginine deiminase	Escherichia coli	22-26
21599905-11	2011	The less ATP production by H+-ATPase may have caused less cytochrome reaction affecting in quinone pool, and caused up-regulation of ArcA/B, which repressed TCA cycle genes and caused more acetate production.	Adenosine Triphosphate	9-12	arginine deiminase	Escherichia coli	133-137
21599905-11	2011	The less ATP production by H+-ATPase may have caused less cytochrome reaction affecting in quinone pool, and caused up-regulation of ArcA/B, which repressed TCA cycle genes and caused more acetate production.	Trichloroacetic Acid	157-160	arginine deiminase	Escherichia coli	133-137
21599905-11	2011	The less ATP production by H+-ATPase may have caused less cytochrome reaction affecting in quinone pool, and caused up-regulation of ArcA/B, which repressed TCA cycle genes and caused more acetate production.	Acetates	189-196	arginine deiminase	Escherichia coli	133-137
21464517-0	2011	Lifespan extension and paraquat resistance in a ubiquinone-deficient Escherichia coli mutant depend on transcription factors ArcA and TdcA.	Paraquat	23-31	arginine deiminase	Escherichia coli	125-129
21451587-5	2011	Flux distribution control was achieved by nine transcription factors on glucose, including ArcA, Fur, PdhR, IHF A and IHF B, but was exclusively mediated by the cAMP-dependent Crp regulation of the PEP-glyoxylate cycle flux on galactose.	Glucose	72-79	arginine deiminase	Escherichia coli	91-95
21464517-0	2011	Lifespan extension and paraquat resistance in a ubiquinone-deficient Escherichia coli mutant depend on transcription factors ArcA and TdcA.	Ubiquinone	48-58	arginine deiminase	Escherichia coli	125-129
21464517-4	2011	The longevity of the mutant, as well as its resistance to the superoxide-generating agent paraquat, is partially dependent on the hypoxia-inducible transcription factor ArcA.	Superoxides	62-72	arginine deiminase	Escherichia coli	169-173
21464517-5	2011	A microarray analysis revealed several genes whose expression is either suppressed or enhanced by ArcA in the ubiG mutant.	ubig	110-114	arginine deiminase	Escherichia coli	98-102
21464517-7	2011	Its enhanced expression in the ubiG mutant is dependent on ArcA.	ubig	31-35	arginine deiminase	Escherichia coli	59-63
21464517-8	2011	Our data are consistent with the hypothesis that ArcA and TdcA function in the same genetic pathway to increase lifespan and enhance oxidative stress resistance in the ubiG mutant.	ubig	168-172	arginine deiminase	Escherichia coli	49-53
20707865-0	2010	Genome-wide screen identifies Escherichia coli TCA-cycle-related mutants with extended chronological lifespan dependent on acetate metabolism and the hypoxia-inducible transcription factor ArcA.	Tricarboxylic Acids	47-50	arginine deiminase	Escherichia coli	189-193
21272324-11	2011	In the cases of cyoA and cydB mutants, arcA, fnr, fur, cydB (for cyoA mutant), and cyoA (for cydB mutant) genes were up-regulated, which may be due to incomplete oxidation of quinol.	Hydroquinones	175-181	arginine deiminase	Escherichia coli	39-43
20707865-5	2010	The hypoxia-inducible transcription factor ArcA, acting independently of acetate metabolism, is also required for maximum lifespan extension in the lipA and lpdA mutants, indicating that these mutations promote entry into a mode normally associated with a low-oxygen environment.	Acetates	73-80	arginine deiminase	Escherichia coli	43-47
20707865-5	2010	The hypoxia-inducible transcription factor ArcA, acting independently of acetate metabolism, is also required for maximum lifespan extension in the lipA and lpdA mutants, indicating that these mutations promote entry into a mode normally associated with a low-oxygen environment.	Oxygen	260-266	arginine deiminase	Escherichia coli	43-47
20622065-4	2010	Here we report mapping of the fadH promoter and document its complex regulation by three independent regulators, the fatty acid degradation FadR repressor, the oxygen-responsive ArcA-ArcB two-component system, and the cyclic AMP receptor protein-cyclic AMP (CRP-cAMP) complex.	Oxygen	160-166	arginine deiminase	Escherichia coli	178-182
20622065-10	2010	In the absence of the CRP-cAMP complex, repression of fadH expression by both FadR and ArcA-ArcB was very weak, suggesting a possible interplay with other DNA binding proteins.	Cyclic AMP	26-30	arginine deiminase	Escherichia coli	87-91
20149000-1	2010	AIMS: Analysis of the physiology and metabolism of Escherichia coli arcA and creC mutants expressing a bifunctional alcohol-acetaldehyde dehydrogenase from Leuconostoc mesenteroides growing on glycerol under oxygen-restricted conditions.	Glycerol	193-201	arginine deiminase	Escherichia coli	68-72
20149000-3	2010	METHODS AND RESULTS: Expression of adhE in E. coli CT1061 [arcA creC(Con)] resulted in a 1.4-fold enhancement in ethanol synthesis.	Ethanol	113-120	arginine deiminase	Escherichia coli	59-63
20400540-2	2010	In addition, ArcA(So) is required for anaerobic growth with dimethyl sulfoxide (DMSO) and plays a role in aerobic respiration.	Dimethyl Sulfoxide	60-78	arginine deiminase	Escherichia coli	13-17
20299454-6	2010	The action of many global transcription factors such as ArcA, Fnr, CRP, and IHF commonly involved both NADH and ATP, whereas others responded to either ATP or NADH.	NAD	103-107	arginine deiminase	Escherichia coli	56-60
20299454-6	2010	The action of many global transcription factors such as ArcA, Fnr, CRP, and IHF commonly involved both NADH and ATP, whereas others responded to either ATP or NADH.	Adenosine Triphosphate	112-115	arginine deiminase	Escherichia coli	56-60
20299454-6	2010	The action of many global transcription factors such as ArcA, Fnr, CRP, and IHF commonly involved both NADH and ATP, whereas others responded to either ATP or NADH.	Adenosine Triphosphate	152-155	arginine deiminase	Escherichia coli	56-60
20299454-6	2010	The action of many global transcription factors such as ArcA, Fnr, CRP, and IHF commonly involved both NADH and ATP, whereas others responded to either ATP or NADH.	NAD	159-163	arginine deiminase	Escherichia coli	56-60
20400540-6	2010	ArcA(So), ArcB1(So), and HptA appear to constitute a two-component signal transduction system that regulates DMSO reduction in S. oneidensis.	Dimethyl Sulfoxide	109-113	arginine deiminase	Escherichia coli	0-4
20400540-2	2010	In addition, ArcA(So) is required for anaerobic growth with dimethyl sulfoxide (DMSO) and plays a role in aerobic respiration.	Dimethyl Sulfoxide	80-84	arginine deiminase	Escherichia coli	13-17
20233924-5	2010	The anaerobic L-tartrate regulator TtdR or the oxygen sensors ArcB-ArcA and FNR did not have a major effect on dmlA expression.	Oxygen	47-53	arginine deiminase	Escherichia coli	67-71
20348304-2	2010	One of the best-studied systems involved in mediating the response to changes in environmental oxygen levels is the Arc two-component system of Escherichia coli, consisting of the sensor kinase ArcB and the cognate response regulator ArcA.	Oxygen	95-101	arginine deiminase	Escherichia coli	234-238
19897650-1	2010	The Arc (anoxic redox control) two-component signal transduction system, consisting of the ArcB sensor kinase and the ArcA response regulator, allows adaptive responses of Escherichia coli to changes of O(2) availability.	o(2)	203-207	arginine deiminase	Escherichia coli	118-122
19897650-2	2010	The arcA gene was previously known as the dye gene because null mutants were growth sensitive to the photosensitizer redox dyes toluidine blue and methylene blue, a phenotype whose molecular basis still remains elusive.	Tolonium Chloride	128-142	arginine deiminase	Escherichia coli	4-8
19897650-2	2010	The arcA gene was previously known as the dye gene because null mutants were growth sensitive to the photosensitizer redox dyes toluidine blue and methylene blue, a phenotype whose molecular basis still remains elusive.	Methylene Blue	147-161	arginine deiminase	Escherichia coli	4-8
19851741-0	2009	Evidence against the physiological role of acetyl phosphate in the phosphorylation of the ArcA response regulator in Escherichia coli.	acetyl phosphate	43-59	arginine deiminase	Escherichia coli	90-94
19851741-3	2009	ArcA has been shown to be able to autophosphorylate in vitro at the expense of acetyl-P.	acetyl phosphate	79-87	arginine deiminase	Escherichia coli	0-4
19851741-5	2009	Our results indicate that acetyl phosphate can modulate the expression of ArcA-P target genes only in the absence of ArcB.	acetyl phosphate	26-42	arginine deiminase	Escherichia coli	74-78
19851741-6	2009	Therefore, the acetyl phosphate dependent ArcA phosphorylation route does not seem to play a significant role under physiological conditions.	acetyl phosphate	15-31	arginine deiminase	Escherichia coli	42-46
19715602-2	2009	We have previously reported that ArcA was necessary for Salmonella to resist reactive oxygen species (ROS) in aerobic conditions.	Reactive Oxygen Species	77-100	arginine deiminase	Escherichia coli	33-37
19561129-0	2009	Metabolic flux analysis of Escherichia coli creB and arcA mutants reveals shared control of carbon catabolism under microaerobic growth conditions.	Carbon	92-98	arginine deiminase	Escherichia coli	53-57
19715602-2	2009	We have previously reported that ArcA was necessary for Salmonella to resist reactive oxygen species (ROS) in aerobic conditions.	Reactive Oxygen Species	102-105	arginine deiminase	Escherichia coli	33-37
19715602-3	2009	RESULTS: To investigate the mechanism of ROS resistance mediated by ArcAB, we generated deletion mutants of ArcA and ArcB in E. coli.	Reactive Oxygen Species	41-44	arginine deiminase	Escherichia coli	68-72
19715602-4	2009	Our results demonstrated that both ArcA and ArcB were necessary for resistance to hydrogen peroxide (H2O2), a type of ROS, and their function in this resistance was independent from H2O2 scavenge.	Hydrogen Peroxide	82-99	arginine deiminase	Escherichia coli	35-39
19715602-4	2009	Our results demonstrated that both ArcA and ArcB were necessary for resistance to hydrogen peroxide (H2O2), a type of ROS, and their function in this resistance was independent from H2O2 scavenge.	Hydrogen Peroxide	101-105	arginine deiminase	Escherichia coli	35-39
19715602-4	2009	Our results demonstrated that both ArcA and ArcB were necessary for resistance to hydrogen peroxide (H2O2), a type of ROS, and their function in this resistance was independent from H2O2 scavenge.	Reactive Oxygen Species	118-121	arginine deiminase	Escherichia coli	35-39
19715602-4	2009	Our results demonstrated that both ArcA and ArcB were necessary for resistance to hydrogen peroxide (H2O2), a type of ROS, and their function in this resistance was independent from H2O2 scavenge.	Hydrogen Peroxide	182-186	arginine deiminase	Escherichia coli	35-39
19715602-5	2009	Mutagenesis analysis of ArcA indicated that ROS resistance was mediated through a distinct signaling pathway from that used in anaerobic conditions.	Reactive Oxygen Species	44-47	arginine deiminase	Escherichia coli	24-28
16962353-6	2006	The fluxes through pyruvate dehydrogenase (PDH) and tricarboxylic acid (TCA) cycle were found to be lower in the arcA mutant and the arcAfnr double mutant strains than that in the wild-type strain, although the expression of the genes involved in these pathways have been proved to be derepressed in the mutant strains ([Shalel-Levanon, S., San, K.Y., Bennett, G.N., 2005a.	Tricarboxylic Acids	52-70	arginine deiminase	Escherichia coli	113-117
19536200-5	2009	Quinone/quinol malfunction was postulated to activate ArcA, Fur, and PhoB in this study.	quinone	0-7	arginine deiminase	Escherichia coli	54-58
19536200-5	2009	Quinone/quinol malfunction was postulated to activate ArcA, Fur, and PhoB in this study.	Hydroquinones	8-14	arginine deiminase	Escherichia coli	54-58
19536200-6	2009	In support of this hypothesis, quinone-linked ArcA and Fur target expressions were significantly less perturbed by isobutanol under fermentative growth whereas quinol-linked PhoB target expressions remained activated, and isobutanol impeded growth on glycerol, which requires quinones, more than on glucose.	quinone	31-38	arginine deiminase	Escherichia coli	46-50
19536200-6	2009	In support of this hypothesis, quinone-linked ArcA and Fur target expressions were significantly less perturbed by isobutanol under fermentative growth whereas quinol-linked PhoB target expressions remained activated, and isobutanol impeded growth on glycerol, which requires quinones, more than on glucose.	isobutyl alcohol	115-125	arginine deiminase	Escherichia coli	46-50
19536200-6	2009	In support of this hypothesis, quinone-linked ArcA and Fur target expressions were significantly less perturbed by isobutanol under fermentative growth whereas quinol-linked PhoB target expressions remained activated, and isobutanol impeded growth on glycerol, which requires quinones, more than on glucose.	Glycerol	251-259	arginine deiminase	Escherichia coli	46-50
19536200-6	2009	In support of this hypothesis, quinone-linked ArcA and Fur target expressions were significantly less perturbed by isobutanol under fermentative growth whereas quinol-linked PhoB target expressions remained activated, and isobutanol impeded growth on glycerol, which requires quinones, more than on glucose.	Quinones	276-284	arginine deiminase	Escherichia coli	46-50
19536200-6	2009	In support of this hypothesis, quinone-linked ArcA and Fur target expressions were significantly less perturbed by isobutanol under fermentative growth whereas quinol-linked PhoB target expressions remained activated, and isobutanol impeded growth on glycerol, which requires quinones, more than on glucose.	Glucose	299-306	arginine deiminase	Escherichia coli	46-50
18034236-0	2008	Poly(3-hydroxybutyrate) synthesis from glycerol by a recombinant Escherichia coli arcA mutant in fed-batch microaerobic cultures.	poly-beta-hydroxybutyrate	0-23	arginine deiminase	Escherichia coli	82-86
18034236-0	2008	Poly(3-hydroxybutyrate) synthesis from glycerol by a recombinant Escherichia coli arcA mutant in fed-batch microaerobic cultures.	Glycerol	39-47	arginine deiminase	Escherichia coli	82-86
18034236-1	2008	Poly(3-hydroxybutyrate) (PHB) synthesis was analyzed under microaerobic conditions in a recombinant Escherichia coli arcA mutant using glycerol as the main carbon source.	poly-beta-hydroxybutyrate	0-23	arginine deiminase	Escherichia coli	117-121
18034236-1	2008	Poly(3-hydroxybutyrate) (PHB) synthesis was analyzed under microaerobic conditions in a recombinant Escherichia coli arcA mutant using glycerol as the main carbon source.	poly-beta-hydroxybutyrate	25-29	arginine deiminase	Escherichia coli	117-121
18034236-1	2008	Poly(3-hydroxybutyrate) (PHB) synthesis was analyzed under microaerobic conditions in a recombinant Escherichia coli arcA mutant using glycerol as the main carbon source.	Glycerol	135-143	arginine deiminase	Escherichia coli	117-121
17013945-0	2007	The YfiD protein contributes to the pyruvate formate-lyase flux in an Escherichia coli arcA mutant strain.	Pyruvic Acid	36-44	arginine deiminase	Escherichia coli	87-91
17693718-0	2007	Growth recovery on glucose under aerobic conditions of an Escherichia coli strain carrying a phosphoenolpyruvate:carbohydrate phosphotransferase system deletion by inactivating arcA and overexpressing the genes coding for glucokinase and galactose permease.	Glucose	19-26	arginine deiminase	Escherichia coli	177-181
17693718-0	2007	Growth recovery on glucose under aerobic conditions of an Escherichia coli strain carrying a phosphoenolpyruvate:carbohydrate phosphotransferase system deletion by inactivating arcA and overexpressing the genes coding for glucokinase and galactose permease.	Phosphoenolpyruvate	93-112	arginine deiminase	Escherichia coli	177-181
19055729-7	2008	In accordance with up-regulation of arcA, which may be caused by the lower oxygen solubility at 42 degrees C, the expressions of the TCA cycle-related genes and the respiratory chain gene cyoA were down-regulated.	Oxygen	75-81	arginine deiminase	Escherichia coli	36-40
19055729-7	2008	In accordance with up-regulation of arcA, which may be caused by the lower oxygen solubility at 42 degrees C, the expressions of the TCA cycle-related genes and the respiratory chain gene cyoA were down-regulated.	Trichloroacetic Acid	133-136	arginine deiminase	Escherichia coli	36-40
19055729-12	2008	It is recommended to use arcA gene knockout mutant to prevent higher acetate production upon heat shock, where it must be noted that the cell yield may be decreased due to TCA cycle activation by arcA gene knockout.	Acetates	69-76	arginine deiminase	Escherichia coli	25-29
19055729-12	2008	It is recommended to use arcA gene knockout mutant to prevent higher acetate production upon heat shock, where it must be noted that the cell yield may be decreased due to TCA cycle activation by arcA gene knockout.	Trichloroacetic Acid	172-175	arginine deiminase	Escherichia coli	25-29
19055729-12	2008	It is recommended to use arcA gene knockout mutant to prevent higher acetate production upon heat shock, where it must be noted that the cell yield may be decreased due to TCA cycle activation by arcA gene knockout.	Trichloroacetic Acid	172-175	arginine deiminase	Escherichia coli	196-200
18462392-2	2008	We demonstrate that the putative arcA and arcB genes of Mannheimia succiniciproducens MBEL55E, a capnophilic (CO2-loving) rumen bacterium, encode functional proteins that specify a two-component system.	N2,N6-bis(4-(2-aminoethoxy)quinolin-2-yl)-4-((4-fluorobenzyl)oxy)pyridine-2,6-dicarboxamide	110-113	arginine deiminase	Escherichia coli	33-37
18462392-3	2008	The Arc proteins of the two bacterial species sufficiently resemble each other that they can participate in heterologous transphosphorylation in vitro, and the arcA and arcB genes of M. succiniciproducens confer toluidine blue resistance to E. coli arcA and arcB mutants.	Tolonium Chloride	212-226	arginine deiminase	Escherichia coli	160-164
18462392-3	2008	The Arc proteins of the two bacterial species sufficiently resemble each other that they can participate in heterologous transphosphorylation in vitro, and the arcA and arcB genes of M. succiniciproducens confer toluidine blue resistance to E. coli arcA and arcB mutants.	Tolonium Chloride	212-226	arginine deiminase	Escherichia coli	249-253
18402772-1	2008	When Escherichia coli cells were grown with limited levels of oxygen, the glucose-induced transcription of ptsG was decreased whereas deletion of the arcA gene partially restored it, which was consistent with the previous report that the ArcA protein represses ptsG transcription.	Oxygen	62-68	arginine deiminase	Escherichia coli	150-154
18402772-1	2008	When Escherichia coli cells were grown with limited levels of oxygen, the glucose-induced transcription of ptsG was decreased whereas deletion of the arcA gene partially restored it, which was consistent with the previous report that the ArcA protein represses ptsG transcription.	Oxygen	62-68	arginine deiminase	Escherichia coli	238-242
18402772-1	2008	When Escherichia coli cells were grown with limited levels of oxygen, the glucose-induced transcription of ptsG was decreased whereas deletion of the arcA gene partially restored it, which was consistent with the previous report that the ArcA protein represses ptsG transcription.	Glucose	74-81	arginine deiminase	Escherichia coli	238-242
18405993-5	2008	Genes involved in aerobic metabolism under control of the ArcB/ArcA two component system were found to be down-regulated, and the interplay of the psp operon, ArcA system and guanosine tetraphosphate is suggested to be involved in stress regulatory mechanisms.	Guanosine Tetraphosphate	175-199	arginine deiminase	Escherichia coli	63-67
18405993-5	2008	Genes involved in aerobic metabolism under control of the ArcB/ArcA two component system were found to be down-regulated, and the interplay of the psp operon, ArcA system and guanosine tetraphosphate is suggested to be involved in stress regulatory mechanisms.	Guanosine Tetraphosphate	175-199	arginine deiminase	Escherichia coli	159-163
18223071-2	2008	Based on (13)C flux analysis of Escherichia coli mutants, we elucidated the relevance of global transcriptional regulation by ArcA, ArcB, Cra, CreB, CreC, Crp, Cya, Fnr, Hns, Mlc, OmpR, and UspA on aerobic glucose catabolism in glucose-limited chemostat cultures at a growth rate of 0.1 h(-1).	Glucose	206-213	arginine deiminase	Escherichia coli	126-130
18223071-2	2008	Based on (13)C flux analysis of Escherichia coli mutants, we elucidated the relevance of global transcriptional regulation by ArcA, ArcB, Cra, CreB, CreC, Crp, Cya, Fnr, Hns, Mlc, OmpR, and UspA on aerobic glucose catabolism in glucose-limited chemostat cultures at a growth rate of 0.1 h(-1).	Glucose	228-235	arginine deiminase	Escherichia coli	126-130
18349549-3	2008	High throughput studies on different redox regulator mutants, involving transcriptome analysis, RT-PCR and phenotypic arrays enabled the elucidation of a repertoire of operons coordinated by ArcA which extended beyond respiration control including, among others, those which code for survival, chromosome replication and degradation of fatty acids.	Fatty Acids	336-347	arginine deiminase	Escherichia coli	191-195
18349550-0	2008	Escherichia coli arcA mutants: metabolic profile characterization of microaerobic cultures using glycerol as a carbon source.	Glycerol	97-105	arginine deiminase	Escherichia coli	17-21
18349550-0	2008	Escherichia coli arcA mutants: metabolic profile characterization of microaerobic cultures using glycerol as a carbon source.	Carbon	111-117	arginine deiminase	Escherichia coli	17-21
18349550-1	2008	ArcA is a global regulator that switches on the expression of fermentation genes and represses the aerobic pathways when Escherichia coli enters low oxygen growth conditions.	Oxygen	149-155	arginine deiminase	Escherichia coli	0-4
17307737-7	2007	To gain further insight into the responses of the regulatory networks, the activities of key transcription factors during the transition to micro-aerobic conditions were inferred using a probabilistic modeling approach, which revealed that the response of the direct oxygen sensor FNR was rapid and overshot, whereas the indirect oxygen sensor ArcA reacted more slowly.	Oxygen	267-273	arginine deiminase	Escherichia coli	344-348
17307737-7	2007	To gain further insight into the responses of the regulatory networks, the activities of key transcription factors during the transition to micro-aerobic conditions were inferred using a probabilistic modeling approach, which revealed that the response of the direct oxygen sensor FNR was rapid and overshot, whereas the indirect oxygen sensor ArcA reacted more slowly.	Oxygen	330-336	arginine deiminase	Escherichia coli	344-348
16962353-6	2006	The fluxes through pyruvate dehydrogenase (PDH) and tricarboxylic acid (TCA) cycle were found to be lower in the arcA mutant and the arcAfnr double mutant strains than that in the wild-type strain, although the expression of the genes involved in these pathways have been proved to be derepressed in the mutant strains ([Shalel-Levanon, S., San, K.Y., Bennett, G.N., 2005a.	Tricarboxylic Acids	72-75	arginine deiminase	Escherichia coli	113-117
16962353-7	2006	Effect of ArcA and FNR on the expression of genes related to the oxygen regulation and the glycolysis pathway in Escherichia coli under microaerobic growth conditions.	Oxygen	65-71	arginine deiminase	Escherichia coli	10-14
16962353-11	2006	Effect of oxygen, and ArcA and FNR regulators on the expression of genes related to the electron transfer chain and the TCA cycle in Escherichia coli.	Tricarboxylic Acids	120-123	arginine deiminase	Escherichia coli	22-26
16849788-3	2006	Gene expression profiles of deletion mutants (Delta arcA, Delta fadR and Delta arcA/Delta fadR) indicated that (i) ArcA is a major transcription factor for the transcriptional regulation of fatty acid metabolism in the absence of oxygen, and (ii) ArcA and FadR cooperatively regulate the fad regulon under anaerobic conditions.	Fatty Acids	190-200	arginine deiminase	Escherichia coli	79-83
16849788-3	2006	Gene expression profiles of deletion mutants (Delta arcA, Delta fadR and Delta arcA/Delta fadR) indicated that (i) ArcA is a major transcription factor for the transcriptional regulation of fatty acid metabolism in the absence of oxygen, and (ii) ArcA and FadR cooperatively regulate the fad regulon under anaerobic conditions.	Fatty Acids	190-200	arginine deiminase	Escherichia coli	115-119
16849788-3	2006	Gene expression profiles of deletion mutants (Delta arcA, Delta fadR and Delta arcA/Delta fadR) indicated that (i) ArcA is a major transcription factor for the transcriptional regulation of fatty acid metabolism in the absence of oxygen, and (ii) ArcA and FadR cooperatively regulate the fad regulon under anaerobic conditions.	Fatty Acids	190-200	arginine deiminase	Escherichia coli	247-251
16496400-1	2006	Glycolytic flux is increased and acetate production is reduced in Escherichia coli by the expression of heterologous NADH oxidase (NOX) from Streptococcus pneumoniae coupled with the deletion of the arcA gene, which encodes the ArcA regulatory protein.	Acetates	33-40	arginine deiminase	Escherichia coli	199-203
16496400-1	2006	Glycolytic flux is increased and acetate production is reduced in Escherichia coli by the expression of heterologous NADH oxidase (NOX) from Streptococcus pneumoniae coupled with the deletion of the arcA gene, which encodes the ArcA regulatory protein.	Acetates	33-40	arginine deiminase	Escherichia coli	228-232
16496400-3	2006	The presence of NOX or the absence of ArcA reduced acetate by about 50% and increased beta-galactosidase production by 10-20%.	Acetates	51-58	arginine deiminase	Escherichia coli	38-42
16496400-4	2006	The presence of NOX in the arcA strain eliminated acetate production entirely in batch fermentations and resulted in a 120% increase in beta-galactosidase production.	Acetates	50-57	arginine deiminase	Escherichia coli	27-31
15988767-8	2005	While the highest expression of adhE and pflB in cultures of the arcA mutant strain can explain the previous report of high ethanol flux and flux through pyruvate formate lyase (PFL) in cultures of this strain, the higher level of ldhA expression was not sufficient to explain the trend in lactate fluxes.	Ethanol	124-131	arginine deiminase	Escherichia coli	65-69
16672514-10	2006	Deletion of arcA resulted in acetate reduction and increased the biomass yield due to the increased capacities of the TCA cycle and respiration.	Acetates	29-36	arginine deiminase	Escherichia coli	12-16
16672514-10	2006	Deletion of arcA resulted in acetate reduction and increased the biomass yield due to the increased capacities of the TCA cycle and respiration.	Tricarboxylic Acids	118-121	arginine deiminase	Escherichia coli	12-16
16672514-11	2006	Acetate formation was completely eliminated by reducing the redox ratio through expression of NADH oxidase in the arcA mutant, even at a very high glucose consumption rate.	Acetates	0-7	arginine deiminase	Escherichia coli	114-118
16672514-11	2006	Acetate formation was completely eliminated by reducing the redox ratio through expression of NADH oxidase in the arcA mutant, even at a very high glucose consumption rate.	Glucose	147-154	arginine deiminase	Escherichia coli	114-118
16597965-0	2006	Poly(3-hydroxybutyrate) synthesis by recombinant Escherichia coli arcA mutants in microaerobiosis.	poly-beta-hydroxybutyrate	0-23	arginine deiminase	Escherichia coli	66-70
16597965-1	2006	We assessed the effects of different arcA mutations on poly(3-hydroxybutyrate) (PHB) synthesis in recombinant Escherichia coli strains carrying the pha synthesis genes from Azotobacter sp.	poly-beta-hydroxybutyrate	55-78	arginine deiminase	Escherichia coli	37-41
16597965-1	2006	We assessed the effects of different arcA mutations on poly(3-hydroxybutyrate) (PHB) synthesis in recombinant Escherichia coli strains carrying the pha synthesis genes from Azotobacter sp.	poly-beta-hydroxybutyrate	80-83	arginine deiminase	Escherichia coli	37-41
16291649-2	2005	Here we demonstrate that the phosphorylated response regulator ArcA is a direct repressor of rpoS transcription that binds to two sites flanking the major rpoS promoter, with the upstream site overlapping an activating cAMP-CRP-binding site.	Cyclic AMP	219-223	arginine deiminase	Escherichia coli	63-67
16291649-5	2005	We suggest that the redox state of the quinones, which controls autophosphorylation of ArcB, not only monitors oxygen but also energy supply, and we show that the ArcB/ArcA/RssB system is involved in sigma(S) induction during entry into starvation conditions.	Quinones	39-47	arginine deiminase	Escherichia coli	168-172
16291649-5	2005	We suggest that the redox state of the quinones, which controls autophosphorylation of ArcB, not only monitors oxygen but also energy supply, and we show that the ArcB/ArcA/RssB system is involved in sigma(S) induction during entry into starvation conditions.	Oxygen	111-117	arginine deiminase	Escherichia coli	168-172
16291649-6	2005	Moreover, this induction is enhanced by a positive feedback that involves sigma(S)-dependent induction of ArcA, which further reduces sigma(S) proteolysis, probably by competing with RssB for residual phosphorylation by ArcB.	rssb	183-187	arginine deiminase	Escherichia coli	106-110
15988767-0	2005	Effect of ArcA and FNR on the expression of genes related to the oxygen regulation and the glycolysis pathway in Escherichia coli under microaerobic growth conditions.	Oxygen	65-71	arginine deiminase	Escherichia coli	10-14
15988767-8	2005	While the highest expression of adhE and pflB in cultures of the arcA mutant strain can explain the previous report of high ethanol flux and flux through pyruvate formate lyase (PFL) in cultures of this strain, the higher level of ldhA expression was not sufficient to explain the trend in lactate fluxes.	Lactic Acid	290-297	arginine deiminase	Escherichia coli	65-69
15988767-9	2005	The results indicate that lower conversion of pyruvate to acetyl-CoA is the main reason for high fluxes through lactate dehydrogenase (LDH) in cultures of the arcA, fnr double mutant strain.	Pyruvic Acid	46-54	arginine deiminase	Escherichia coli	159-163
15988767-9	2005	The results indicate that lower conversion of pyruvate to acetyl-CoA is the main reason for high fluxes through lactate dehydrogenase (LDH) in cultures of the arcA, fnr double mutant strain.	Acetyl Coenzyme A	58-68	arginine deiminase	Escherichia coli	159-163
15882425-5	2005	One locus that we identified as being potentially regulated by ArcA in S. oneidensis contains genes predicted to encode subunits of a dimethyl sulphoxide (DMSO) reductase.	Dimethyl Sulfoxide	134-153	arginine deiminase	Escherichia coli	63-67
16140031-0	2005	Effect of oxygen, and ArcA and FNR regulators on the expression of genes related to the electron transfer chain and the TCA cycle in Escherichia coli.	Trichloroacetic Acid	120-123	arginine deiminase	Escherichia coli	22-26
16140031-7	2005	Since significantly higher NADH/NAD+ ratios were previously observed in cultures of the arcA mutant strain compared to the wild type it seems that the cytochrome o oxidase (the product of cyoABCDE) cannot efficiently support aerobic respiration when the cells are grown under microaerobic conditions.	NAD	27-31	arginine deiminase	Escherichia coli	88-92
16140031-7	2005	Since significantly higher NADH/NAD+ ratios were previously observed in cultures of the arcA mutant strain compared to the wild type it seems that the cytochrome o oxidase (the product of cyoABCDE) cannot efficiently support aerobic respiration when the cells are grown under microaerobic conditions.	NAD	32-36	arginine deiminase	Escherichia coli	88-92
15882425-5	2005	One locus that we identified as being potentially regulated by ArcA in S. oneidensis contains genes predicted to encode subunits of a dimethyl sulphoxide (DMSO) reductase.	Dimethyl Sulfoxide	155-159	arginine deiminase	Escherichia coli	63-67
15882425-6	2005	We demonstrate that these genes encode a functional DMSO reductase, and that an arcA mutant cannot fully induce their expression and is defective in growing on DMSO under anaerobic conditions.	Dimethyl Sulfoxide	52-56	arginine deiminase	Escherichia coli	80-84
15252051-3	2004	In this report, we performed ligand fishing experiments by using the promoters of ptsHIcrr and ptsG as bait to find out new factors involved in the transcriptional regulation of the phosphoenolpyruvate:sugar phosphotransferase system in Escherichia coli, and we found that the anaerobic regulator ArcA specifically binds to the promoters.	Phosphoenolpyruvate	182-201	arginine deiminase	Escherichia coli	297-301
15882425-8	2005	This protein alone is unable to compensate for the lack of arcB in E. coli, indicating that another protein is required in addition to HptA to activate ArcA in S. oneidensis.	8-Hydroxy-N,N,N',N',N'',N''-hexamethylpyrene-1,3,6-trisulfonamide	135-139	arginine deiminase	Escherichia coli	152-156
15838044-0	2005	Impact of global transcriptional regulation by ArcA, ArcB, Cra, Crp, Cya, Fnr, and Mlc on glucose catabolism in Escherichia coli.	Glucose	90-97	arginine deiminase	Escherichia coli	47-51
15838044-4	2005	Knockout of ArcA-dependent redox regulation, however, increased the aerobic tricarboxylic acid (TCA) cycle activity by over 60%.	Tricarboxylic Acids	76-94	arginine deiminase	Escherichia coli	12-16
15838044-4	2005	Knockout of ArcA-dependent redox regulation, however, increased the aerobic tricarboxylic acid (TCA) cycle activity by over 60%.	Tricarboxylic Acids	96-99	arginine deiminase	Escherichia coli	12-16
15838044-5	2005	Like aerobic conditions, anaerobic derepression of TCA cycle enzymes in an ArcA mutant significantly increased the in vivo TCA flux when nitrate was present as an electron acceptor.	Tricarboxylic Acids	51-54	arginine deiminase	Escherichia coli	75-79
15838044-5	2005	Like aerobic conditions, anaerobic derepression of TCA cycle enzymes in an ArcA mutant significantly increased the in vivo TCA flux when nitrate was present as an electron acceptor.	Tricarboxylic Acids	123-126	arginine deiminase	Escherichia coli	75-79
15838044-5	2005	Like aerobic conditions, anaerobic derepression of TCA cycle enzymes in an ArcA mutant significantly increased the in vivo TCA flux when nitrate was present as an electron acceptor.	Nitrates	137-144	arginine deiminase	Escherichia coli	75-79
15838044-6	2005	The in vivo and in vitro data demonstrate that ArcA-dependent transcriptional regulation directly or indirectly controls TCA cycle flux in both aerobic and anaerobic glucose batch cultures of E. coli.	Tricarboxylic Acids	121-124	arginine deiminase	Escherichia coli	47-51
15838044-6	2005	The in vivo and in vitro data demonstrate that ArcA-dependent transcriptional regulation directly or indirectly controls TCA cycle flux in both aerobic and anaerobic glucose batch cultures of E. coli.	Glucose	166-173	arginine deiminase	Escherichia coli	47-51
15838044-7	2005	This control goes well beyond the previously known ArcA-dependent regulation of the TCA cycle during microaerobiosis.	Tricarboxylic Acids	84-87	arginine deiminase	Escherichia coli	51-55
15669087-0	2005	Effect of oxygen on the Escherichia coli ArcA and FNR regulation systems and metabolic responses.	Oxygen	10-16	arginine deiminase	Escherichia coli	41-45
16255146-3	2005	High-level transcription required both ArcA and Fnr systems to be functional; low oxygen induction required at least one of ArcA and Fnr to be intact.	Oxygen	82-88	arginine deiminase	Escherichia coli	124-128
12486057-9	2003	In contrast, profound effects of the absence of ArcA were seen under conditions of oxygen-restricted growth: increased respiration, an altered electron flux distribution over the cytochrome o- and d-terminal oxidases, and a significant change in the intracellular redox state were observed.	Oxygen	83-89	arginine deiminase	Escherichia coli	48-52
14711822-4	2004	To identify these operons, we derived the ArcA-P-dependent transcription profile of E. coli using oligonucleotide-based microarray analysis.	Oligonucleotides	98-113	arginine deiminase	Escherichia coli	42-46
11527965-5	2001	However, we were able to inhibit the dephosphorylation for more than 12 h by the addition of EDTA; this allowed us to characterize ArcA-P.	Edetic Acid	93-97	arginine deiminase	Escherichia coli	131-137
11527965-6	2001	Gel-filtration and glycerol sedimentation experiments demonstrated that ArcA exists as a homo-dimer.	Glycerol	19-27	arginine deiminase	Escherichia coli	72-76
11527965-7	2001	ArcA phosphorylated by either ArcB or carbamyl phosphate multimerizes to form a tetramer of dimers; this multimer binds to the ArcA DNA binding site.	Carbamyl Phosphate	38-56	arginine deiminase	Escherichia coli	0-4
11527965-7	2001	ArcA phosphorylated by either ArcB or carbamyl phosphate multimerizes to form a tetramer of dimers; this multimer binds to the ArcA DNA binding site.	Carbamyl Phosphate	38-56	arginine deiminase	Escherichia coli	127-131
11133990-2	2001	In response to low oxygen levels, autophosphorylated ArcB phosphorylates ArcA, and the resulting phosphorylated ArcA (ArcA-P) functions as a transcriptional regulator of the genes necessary to maintain anaerobic growth.	Oxygen	19-25	arginine deiminase	Escherichia coli	73-77
11133990-2	2001	In response to low oxygen levels, autophosphorylated ArcB phosphorylates ArcA, and the resulting phosphorylated ArcA (ArcA-P) functions as a transcriptional regulator of the genes necessary to maintain anaerobic growth.	Oxygen	19-25	arginine deiminase	Escherichia coli	112-116
11133990-2	2001	In response to low oxygen levels, autophosphorylated ArcB phosphorylates ArcA, and the resulting phosphorylated ArcA (ArcA-P) functions as a transcriptional regulator of the genes necessary to maintain anaerobic growth.	Oxygen	19-25	arginine deiminase	Escherichia coli	118-124