4ER8

Structure of the REP associates tyrosine transposase bound to a REP hairpin

Summary for 4ER8

• Entry DOI: 10.2210/pdb4er8/pdb
• Descriptor: TnpArep for protein, DNA (32-MER), NICKEL (II) ION, ... (4 entities in total)
• Functional Keywords: protein-dna complex, guide sequence, catalytic tyrosine, rna recognition motif, transposase, huh motif, dna binding protein-dna complex, dna binding protein/dna
• Biological source: Escherichia coli
• Total number of polymer chains: 2
• Total formula weight: 30041.94

Authors

Messing, S.A.J.,Ton-Hoang, B.,Hickman, A.B.,Ghirlando, R.,Chandler, M.,Dyda, F. (deposition date: 2012-04-19, release date: 2012-08-15, Last modification date: 2024-02-28)

Primary citation

Messing, S.A.,Ton-Hoang, B.,Hickman, A.B.,McCubbin, A.J.,Peaslee, G.F.,Ghirlando, R.,Chandler, M.,Dyda, F.
The processing of repetitive extragenic palindromes: the structure of a repetitive extragenic palindrome bound to its associated nuclease.
Nucleic Acids Res., 40:9964-9979, 2012

PubMed Abstract: Extragenic sequences in genomes, such as microRNA and CRISPR, are vital players in the cell. Repetitive extragenic palindromic sequences (REPs) are a class of extragenic sequences, which form nucleotide stem-loop structures. REPs are found in many bacterial species at a high copy number and are important in regulation of certain bacterial functions, such as Integration Host Factor recruitment and mRNA turnover. Although a new clade of putative transposases (RAYTs or TnpA(REP)) is often associated with an increase in these repeats, it is not clear how these proteins might have directed amplification of REPs. We report here the structure to 2.6 Å of TnpA(REP) from Escherichia coli MG1655 bound to a REP. Sequence analysis showed that TnpA(REP) is highly related to the IS200/IS605 family, but in contrast to IS200/IS605 transposases, TnpA(REP) is a monomer, is auto-inhibited and is active only in manganese. These features suggest that, relative to IS200/IS605 transposases, it has evolved a different mechanism for the movement of discrete segments of DNA and has been severely down-regulated, perhaps to prevent REPs from sweeping through genomes.

PubMed: 22885300
DOI: 10.1093/nar/gks741

Experimental method

X-RAY DIFFRACTION (2.6 Å)