2cxi

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spinqualitylabelsall models 2cxi, resolution 1.94Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image

Crystal Structure Of An N-terminal Fragment Of The Phenylalanyl-tRNA Synthetase Beta-Subunit From Pyrococcus Horikoshii

Overview

To achieve accurate aminoacylation of tRNAs with their cognate amino, acids, errors in aminoacylation are corrected by the "editing" mechanism, in several aminoacyl-tRNA synthetases. Phenylalanyl-tRNA synthetase, (PheRS) hydrolyzes, or edits, misformed tyrosyl-tRNA with its editing, domain in the beta subunit. We report the crystal structure of an, N-terminal fragment of the PheRS beta subunit (PheRS-beta(N)) from the, archaeon, Pyrococcus horikoshii, at 1.94-A resolution. PheRS-beta(N), includes the editing domain B3/4, which has archaea/eukarya-specific, insertions/deletions and adopts a different orientation relative to other, domains, as compared with that of bacterial PheRS. Surprisingly, most, residues constituting the editing active-site pocket were substituted, between the archaeal/eukaryal and bacterial PheRSs. We prepared, Ala-substituted mutants of P. horikoshii PheRS for 16 editing-pocket, residues, of which 12 are archaea/eukarya-specific and four are more, widely conserved. On the basis of their activities, Tyr-adenosine was, modeled on the B3/4-domain structure. First, the mutations of Leu-202, Ser-211, Asp-234, and Thr-236 made the PheRS incorrectly hydrolyze the, cognate Phe-tRNA(Phe), indicating that these residues participate in the, Tyr hydroxy group recognition and are responsible for discrimination, against Phe. Second, the mutations of Leu-168 and Arg-223, which could, interact with the tRNA 3'-terminal adenosine, reduced Tyr-tRNA(Phe), deacylation activity. Third, the mutations of archaea/eukarya-specific, Gln-126, Glu-127, Arg-137, and Asn-217, which are proximal to the ester, bond to be cleaved, also reduced Tyr-tRNA(Phe) deacylation activity. In, particular, the replacement of Asn-217 abolished the activity, revealing, its absolute requirement for the catalysis.

About this Structure

2CXI is a Single protein structure of sequence from Pyrococcus horikoshii. Active as Phenylalanine--tRNA ligase, with EC number 6.1.1.20 Full crystallographic information is available from OCA.

Reference

Structural and mutational studies of the amino acid-editing domain from archaeal/eukaryal phenylalanyl-tRNA synthetase., Sasaki HM, Sekine S, Sengoku T, Fukunaga R, Hattori M, Utsunomiya Y, Kuroishi C, Kuramitsu S, Shirouzu M, Yokoyama S, Proc Natl Acad Sci U S A. 2006 Oct 3;103(40):14744-9. Epub 2006 Sep 26. PMID:17003130

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