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TitleCharacterization of the genome, proteome, and structure of yersiniophage ϕR1-37.
Journal, issue, pagesJ Virol, Vol. 86, Issue 23, Page 12625-12642, Year 2012
Publish dateSep 12, 2012
AuthorsMikael Skurnik / Heidi J Hyytiäinen / Lotta J Happonen / Saija Kiljunen / Neeta Datta / Laura Mattinen / Kirsty Williamson / Paula Kristo / Magdalena Szeliga / Laura Kalin-Mänttäri / Elina Ahola-Iivarinen / Nisse Kalkkinen / Sarah J Butcher /
PubMed AbstractThe bacteriophage vB_YecM-ϕR1-37 (ϕR1-37) is a lytic yersiniophage that can propagate naturally in different Yersinia species carrying the correct lipopolysaccharide receptor. This large-tailed ...The bacteriophage vB_YecM-ϕR1-37 (ϕR1-37) is a lytic yersiniophage that can propagate naturally in different Yersinia species carrying the correct lipopolysaccharide receptor. This large-tailed phage has deoxyuridine (dU) instead of thymidine in its DNA. In this study, we determined the genomic sequence of phage ϕR1-37, mapped parts of the phage transcriptome, characterized the phage particle proteome, and characterized the virion structure by cryo-electron microscopy and image reconstruction. The 262,391-bp genome of ϕR1-37 is one of the largest sequenced phage genomes, and it contains 367 putative open reading frames (ORFs) and 5 tRNA genes. Mass-spectrometric analysis identified 69 phage particle structural proteins with the genes scattered throughout the genome. A total of 269 of the ORFs (73%) lack homologues in sequence databases. Based on terminator and promoter sequences identified from the intergenic regions, the phage genome was predicted to consist of 40 to 60 transcriptional units. Image reconstruction revealed that the ϕR1-37 capsid consists of hexameric capsomers arranged on a T=27 lattice similar to the bacteriophage ϕKZ. The tail of ϕR1-37 has a contractile sheath. We conclude that phage ϕR1-37 is a representative of a novel phage type that carries the dU-containing genome in a ϕKZ-like head.
External linksJ Virol / PubMed:22973030 / PubMed Central
MethodsEM (single particle)
Resolution23.4 - 23.8 Å
Structure data

EMDB-2159:
Electron cryo-microscopy of the intact (DNA-filled) head of the yersiniophage phiR1-37
Method: EM (single particle) / Resolution: 23.8 Å

EMDB-2160:
Electron cryo-microscopy of the empty (DNA-lacking) head of the yersiniophage phiR1-37
Method: EM (single particle) / Resolution: 23.4 Å

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