Publications
2000
Kolb F A, Malmgren C, Westhof E, Ehresmann C, Ehresmann B, Wagner E G, Romby P
An unusual structure formed by antisense-target RNA binding involves an extended kissing complex with a four-way junction and a side-by-side helical alignment Article de journal
Dans: RNA, vol. 6, no. 3, p. 311-324, 2000, ISBN: 10744017, (1355-8382 Journal Article).
Résumé | Liens | BibTeX | Étiquettes: Antisense/*metabolism RNA, Bacterial Proteins/*metabolism Base Pairing Base Sequence Binding Sites Cations, Divalent Computer Simulation Metals, Double-Stranded/metabolism RNA, Heavy/metabolism Models, Messenger/metabolism RNA, Molecular Molecular Sequence Data *Nucleic Acid Conformation RNA Stability RNA, Non-U.S. Gov't, ROMBY, Spliced Leader/metabolism Support, Unité ARN
@article{,
title = {An unusual structure formed by antisense-target RNA binding involves an extended kissing complex with a four-way junction and a side-by-side helical alignment},
author = {F A Kolb and C Malmgren and E Westhof and C Ehresmann and B Ehresmann and E G Wagner and P Romby},
url = {http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=10744017},
isbn = {10744017},
year = {2000},
date = {2000-01-01},
journal = {RNA},
volume = {6},
number = {3},
pages = {311-324},
abstract = {The antisense RNA CopA binds to the leader region of the repA mRNA (target: CopT). Previous studies on CopA-CopT pairing in vitro showed that the dominant product of antisense RNA-mRNA binding is not a full RNA duplex. We have studied here the structure of CopA-CopT complex, combining chemical and enzymatic probing and computer graphic modeling. CopI, a truncated derivative of CopA unable to bind CopT stably, was also analyzed. We show here that after initial loop-loop interaction (kissing), helix propagation resulted in an extended kissing complex that involves the formation of two intermolecular helices. By introducing mutations (base-pair inversions) into the upper stem regions of CopA and CopT, the boundaries of the two newly formed intermolecular helices were delimited. The resulting extended kissing complex represents a new type of four-way junction structure that adopts an asymmetrical X-shaped conformation formed by two helical domains, each one generated by coaxial stacking of two helices. This structure motif induces a side-by-side alignment of two long intramolecular helices that, in turn, facilitates the formation of an additional intermolecular helix that greatly stabilizes the inhibitory CopA-CopT RNA complex. This stabilizer helix cannot form in CopI-CopT complexes due to absence of the sequences involved. The functional significance of the three-dimensional models of the extended kissing complex (CopI-CopT) and the stable complex (CopA-CopT) are discussed.},
note = {1355-8382
Journal Article},
keywords = {Antisense/*metabolism RNA, Bacterial Proteins/*metabolism Base Pairing Base Sequence Binding Sites Cations, Divalent Computer Simulation Metals, Double-Stranded/metabolism RNA, Heavy/metabolism Models, Messenger/metabolism RNA, Molecular Molecular Sequence Data *Nucleic Acid Conformation RNA Stability RNA, Non-U.S. Gov't, ROMBY, Spliced Leader/metabolism Support, Unité ARN},
pubstate = {published},
tppubtype = {article}
}
1997
Malmgren C, Wagner E G, Ehresmann C, Ehresmann B, Romby P
Antisense RNA control of plasmid R1 replication. The dominant product of the antisense rna-mrna binding is not a full RNA duplex Article de journal
Dans: J Biol Chem, vol. 272, no. 19, p. 12508-12512, 1997, ISBN: 9139701, (0021-9258 Journal Article).
Résumé | Liens | BibTeX | Étiquettes: Antisense/*metabolism RNA, Bacterial Proteins/genetics/metabolism Base Sequence Copper/metabolism Electrophoresis, Messenger/*metabolism Ribonuclease III Support, Non-U.S. Gov't, Polyacrylamide Gel Endoribonucleases/metabolism Escherichia coli Lead Molecular Sequence Data Nucleic Acid Conformation Plasmids/*metabolism Pseudomonas RNA, ROMBY, Unité ARN
@article{,
title = {Antisense RNA control of plasmid R1 replication. The dominant product of the antisense rna-mrna binding is not a full RNA duplex},
author = {C Malmgren and E G Wagner and C Ehresmann and B Ehresmann and P Romby},
url = {http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=9139701},
isbn = {9139701},
year = {1997},
date = {1997-01-01},
journal = {J Biol Chem},
volume = {272},
number = {19},
pages = {12508-12512},
abstract = {The replication frequency of plasmid R1 is controlled by an antisense RNA (CopA) that binds to its target site (CopT) in the leader region of repA mRNA and inhibits the synthesis of the replication initiator protein RepA. Previous studies on CopA-CopT pairing in vitro revealed the existence of a primary loop-loop interaction (kissing complex) that is subsequently converted to an almost irreversible duplex. However, the structure of more stable binding intermediates that lead to the formation of a complete duplex was speculative. Here, we investigated the interaction between CopA and CopT by using Pb(II)-induced cleavages. The kissing complex was studied using a truncated antisense RNA (CopI) that is unable to form a full duplex with CopT. Furthermore, RNase III, which is known to process the CopA-CopT complex in vivo, was used to detect the existence of a full duplex. Our data indicate that the formation of a full CopA-CopT duplex appears to be a very slow process in vitro. Unexpectedly, we found that the loop-loop interaction persists in the predominant CopA-CopT complex and is stabilized by intermolecular base pairing involving the 5'-proximal 30 nucleotides of CopA and the complementary region of CopT. This almost irreversible complex suffices to inhibit ribosome binding at the tap ribosome binding site and may be the inhibitory complex in vivo.},
note = {0021-9258
Journal Article},
keywords = {Antisense/*metabolism RNA, Bacterial Proteins/genetics/metabolism Base Sequence Copper/metabolism Electrophoresis, Messenger/*metabolism Ribonuclease III Support, Non-U.S. Gov't, Polyacrylamide Gel Endoribonucleases/metabolism Escherichia coli Lead Molecular Sequence Data Nucleic Acid Conformation Plasmids/*metabolism Pseudomonas RNA, ROMBY, Unité ARN},
pubstate = {published},
tppubtype = {article}
}