PMID:7499339

Citation	Nelson, WC, Howard, MT, Sherman, JA and Matson, SW (1995) The traY gene product and integration host factor stimulate Escherichia coli DNA helicase I-catalyzed nicking at the F plasmid oriT. J. Biol. Chem. 270:28374-80
Abstract	F plasmid conjugative transfer is initiated by the introduction of a site- and strand-specific nick within the plasmid origin of transfer (oriT). Genetic studies have shown nick formation to be dependent on both the traI and traY genes. However, highly purified TraIp, the traI gene product, nicks oriT in a site- and strand-specific manner in the absence of the traY gene product (TraYp) in vitro (Matson, S.W., and Morton, B.S. (1991) J. Biol. Chem. 266, 16232-16237). Analysis of the oriT region has revealed binding sites for TraYp and the host protein integration host factor (IHF). To explore possible interactions occurring at oriT, highly purified TraIp, TraYp, and IHF were incubated with a supercoiled oriT-containing DNA substrate. A marked enhancement of the nicking reaction catalyzed by TraIp was observed in a reaction that required both TraYp and IHF. In addition, TraIp was able to nick a linear oriT-containing double-stranded DNA substrate when IHF and TraYp were present in the reaction; such a substrate is not nicked by TraIp alone. Individual protein concentration requirements for the supercoiled and linear nicking reactions were similar, and the reactions occurred at equal velocity, suggesting that they are biochemically identical. Concentrations of TraYp and IHF that yield half-maximal activity in the nicking assays compare well with the reported KD values for the IHF and TraYp binding sites in oriT. These data, coupled with data presented in the accompanying report, suggest that TraYp and IHF bind independent of one another, forming a nucleo-protein complex with oriT that can be recognized and nicked by TraIp.
Links	PubMed
Keywords	Bacterial Proteins/genetics; Bacterial Proteins/isolation & purification; Bacterial Proteins/metabolism; DNA Helicases/metabolism; DNA, Superhelical/isolation & purification; DNA, Superhelical/metabolism; DNA-Binding Proteins/metabolism; Electrophoresis, Polyacrylamide Gel; Escherichia coli/genetics; Escherichia coli/metabolism; Escherichia coli Proteins; F Factor/metabolism; Genes, Bacterial; Integration Host Factors; Kinetics; Mutagenesis; Osmolar Concentration; Sequence Deletion; Sodium Chloride/pharmacology; Substrate Specificity
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Annotations

Gene product	Qualifier	GO Term	Evidence Code	with/from	Aspect	Extension	Notes	Status
ECOLI:TRAI1	Contributes to	GO:0004520: endodeoxyribonuclease activity	ECO:0000314:		F		See Fig 3 & 5	complete
ECOLX:TRAY3		GO:0032079: endodeoxyribonuclease activity	ECO:0000314:		F		See Fig 3&5	complete
ECOLI:IHFA		GO:0032079: endodeoxyribonuclease activity	ECO:0000314:		F		See Fig 3 & 5	complete
ECOLI:IHFB		GO:0032079: endodeoxyribonuclease activity	ECO:0000314:		F		Fig 3 & 5	complete

References

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