Identifying New Motifs in Class 3 Inteins Mobile Elements.

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Presentation transcript:

Identifying New Motifs in Class 3 Inteins Mobile Elements

Inteins – What? Where? Why? Protein equivalents of introns Sandwiched between extein regions Mobile elements in a genome Many found in helicase, terminase proteins

A Closer Look at Intein Structure.

Splice Sites and Endonuclease Domains. Inteins contain splice sites which autocatalyze excision from host extein 2 known kinds of splicing mechanisms exist – Class 1 and Class 2 Inteins Tori et al. suggest a third – Class 3 Inteins Endonuclease domain responsible for spread of intein

Conserved Motifs in Splice Sites. Class 1: N-terminal Nucleophilic residue (cys, ser) Class 3: No N-terminal nucleophilic residue Class 3: Obligatory WCT triplet within splicing motifs

The Problem. Are there any other conserved motifs in Class 3 inteins besides the WCT triplet that may be used as an identification method?

The Model. PHAGE: Mycobacteriophage Bethlehem INTEIN: Mp-Be DnaB Intein SOURCE: Tori et al Splicing of the Mycobacteriophage Bethlehem DnaB Intein. Journal of Biological Chemistry 285(4):

Methods. Find similar sequences to DnaB Intein by looking for similarity in intein region in all mycobacteriophage Align sequences Identify WCT Identify new motifs Compare new motifs found with those of class 1 inteins

Observations.

How Similar Are they?

Results. New obligatory motif in splice site in addition to WCT triplet GG********H***********************HN Inteins from SCOTT, SPUD, ET08, Drazdys, Ghost, Catera, RIZAL are closely related Inteins from Omega, LittleE are closely related Inteins from BAKA, Optimus, Thibault are closely related

Next Steps. Is this motif conserved in Class 1 inteins?  Why I care: if it is = poor diagnostic tool Are the other mycobacteriophage that were similar to Mp-Be intein but lacked similarity within the intein region, related?  Why I care: Perhaps inteins prefer some host proteins to others

Acknowledgements. This work would not have been possible without the support of: Dr. Jeff Elhai Mobile Elements Group