5U36 image
Deposition Date 2016-12-01
Release Date 2017-06-07
Last Version Date 2023-10-04
Entry Detail
PDB ID:
5U36
Keywords:
Title:
Crystal Structure Of A Mutant M. Jannashii Tyrosyl-tRNA Synthetase
Biological Source:
Method Details:
Experimental Method:
Resolution:
3.03 Å
R-Value Free:
0.28
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tyrosine--tRNA ligase
Gene (Uniprot):tyrS
Mutagens:Y32S, L65A, F108K, Q109H, D158G, L162K
Chain IDs:A, B
Chain Length:314
Number of Molecules:2
Biological Source:Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)
Ligand Molecules
Primary Citation
Genetically encoding phosphotyrosine and its nonhydrolyzable analog in bacteria.
Nat. Chem. Biol. 13 845 849 (2017)
PMID: 28604693 DOI: 10.1038/nchembio.2405

Abstact

Tyrosine phosphorylation is a common protein post-translational modification that plays a critical role in signal transduction and the regulation of many cellular processes. Using a propeptide strategy to increase cellular uptake of O-phosphotyrosine (pTyr) and its nonhydrolyzable analog 4-phosphomethyl-L-phenylalanine (Pmp), we identified an orthogonal aminoacyl-tRNA synthetase-tRNA pair that allows site-specific incorporation of both pTyr and Pmp into recombinant proteins in response to the amber stop codon in Escherichia coli in good yields. The X-ray structure of the synthetase reveals a reconfigured substrate-binding site, formed by nonconservative mutations and substantial local structural perturbations. We demonstrate the utility of this method by introducing Pmp into a putative phosphorylation site and determining the affinities of the individual variants for the substrate 3BP2. In summary, this work provides a useful recombinant tool to dissect the biological functions of tyrosine phosphorylation at specific sites in the proteome.

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Primary Citation of related structures