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5d1n

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Crystal structure of the 16S rRNA (adenine(1408)-N(1))-methyltransferase with its reaction by-product SAH from Catenulisporales acidiphilia

Structural highlights

5d1n is a 1 chain structure with sequence from Catenulispora acidiphila DSM 44928. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.713Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

C7Q5P8_CATAD

Publication Abstract from PubMed

Methylation of the bacterial small ribosomal subunit (16S) rRNA on the N1 position of A1408 confers exceptionally high-level resistance to a broad spectrum of aminoglycoside antibiotics. Here, we present a detailed structural and functional analysis of the Catenulisporales acidiphilia 16S rRNA (m(1)A1408) methyltransferase ('CacKam'). The apo CacKam structure closely resembles other m(1)A1408 methyltransferases within its conserved SAM-binding fold but the region linking core beta strands 6 and 7 (the 'beta6/7 linker') has a unique, extended structure that partially occludes the putative 16S rRNA binding surface, and sequesters the conserved and functionally critical W203 outside of the CacKam active site. Substitution of conserved residues in the SAM binding pocket reveals a functional dichotomy in the 16S rRNA (m(1)A1408) methyltransferase family, with two apparently distinct molecular mechanisms coupling cosubstrate/ substrate binding to catalytic activity. Our results additionally suggest that CacKam exploits the W203-mediated remodeling of the beta6/7 linker as a novel mechanism to control 30S substrate recognition and enzymatic turnover.

Functional dichotomy in the 16S rRNA (m1A1408) methyltransferase family and control of catalytic activity via a novel tryptophan mediated loop reorganization.,Witek MA, Conn GL Nucleic Acids Res. 2016 Jan 8;44(1):342-53. doi: 10.1093/nar/gkv1306. Epub 2015, Nov 24. PMID:26609134^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Witek MA, Conn GL. Functional dichotomy in the 16S rRNA (m1A1408) methyltransferase family and control of catalytic activity via a novel tryptophan mediated loop reorganization. Nucleic Acids Res. 2016 Jan 8;44(1):342-53. doi: 10.1093/nar/gkv1306. Epub 2015, Nov 24. PMID:26609134 doi:http://dx.doi.org/10.1093/nar/gkv1306