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Specific interaction of zinc finger protein Com with RNA and the crystal structure of a self-complementary RNA duplex recognized by Com.

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dc.abstract.enThe bacteriophage Mu Com is a small zinc finger protein that binds to its cognate mom mRNA and activates its translation. The Mom protein, in turn, elicits a chemical modification (momification) of the bacteriophage genome, rendering the DNA resistant to cleavage by bacterial restriction endonucleases, and thereby protecting it from defense mechanisms of the host. We examined the basis of specificity in Com–RNA interactions by in vitro selection and probing of RNA structure. We demonstrated that Com recognizes a sequence motif within a hairpin-loop structure of its target RNA. Our data support the model of Com interaction with mom mRNA, in which Com binds to the short hairpin structure proximal to the so-called translation inhibition structure. We also observed that Com binds its target motif weakly if it is within an RNA duplex. These results suggest that the RNA structure, in addition to its sequence, is crucial for Com to recognize its target and that RNA conformational changes may constitute another level of Mom regulation. We determined a crystal structure of a Com binding site variant designed to form an RNA duplex preferentially. Our crystal model forms a 19-mer self-complementary double helix composed of the canonical and non-canonical base pairs. The helical parameters of crystalized RNA indicate why Com may bind it more weakly than a monomeric hairpin form.
dc.affiliationUniwersytet Warszawski
dc.contributor.authorBujnicki, Janusz
dc.contributor.authorBernat, Agata
dc.contributor.authorKiliszek, Agnieszka
dc.contributor.authorŁach, Grzegorz
dc.contributor.authorFernandes, Humberto
dc.contributor.authorNowacka, Martyna
dc.date.accessioned2024-01-26T07:54:43Z
dc.date.available2024-01-26T07:54:43Z
dc.date.copyright2019-04-25
dc.date.issued2019
dc.description.accesstimeAT_PUBLICATION
dc.description.financeNie dotyczy
dc.description.number4
dc.description.versionFINAL_PUBLISHED
dc.description.volume14
dc.identifier.doi10.1371/JOURNAL.PONE.0214481
dc.identifier.issn1932-6203
dc.identifier.urihttps://repozytorium.uw.edu.pl//handle/item/120323
dc.identifier.weblinkhttp://150.254.65.57/info/article/UAMa10a5e76a16c4076898b4ce5fb325a23/
dc.languageeng
dc.pbn.affiliationphysical sciences
dc.relation.ispartofPLoS ONE
dc.relation.pagese0214481
dc.rightsCC-BY
dc.sciencecloudnosend
dc.subject.enTRANSLATIONAL ACTIVATOR
dc.subject.enBINDING DOMAINS
dc.subject.enCOMPLEX REVEALS
dc.subject.enTAT
dc.subject.enSEQUENCE
dc.subject.enMODES
dc.subject.enSHAPE
dc.subject.enSITE
dc.subject.enJAZ
dc.titleSpecific interaction of zinc finger protein Com with RNA and the crystal structure of a self-complementary RNA duplex recognized by Com.
dc.typeJournalArticle
dspace.entity.typePublication