1C0A: Crystal Structure Of The E. Coli Aspartyl-Trna Synthetase : Trnaasp : Aspartyl-Adenylate Complex

The 2.4 A crystal structure of the Escherichia coli aspartyl-tRNA synthetase (AspRS)-tRNA(Asp)-aspartyl-adenylate complex shows the two substrates poised for the transfer of the aspartic acid moiety from the adenylate to the 3'-hydroxyl of the terminal adenosine of the tRNA. A general molecular mechanism is proposed for the second step of the aspartylation reaction that accounts for the observed conformational changes, notably in the active site pocket. The stabilization of the transition state is mediated essentially by two amino acids: the class II invariant arginine of motif 2 and the eubacterial-specific Gln231, which in eukaryotes and archaea is replaced by a structurally non-homologous serine. Two archetypal RNA-protein modes of interactions are observed: the anticodon stem-loop, including the wobble base Q, binds to the N-terminal beta-barrel domain through direct protein-RNA interactions, while the binding of the acceptor stem involves both direct and water-mediated hydrogen bonds in an original recognition scheme.
PDB ID: 1C0ADownload
MMDB ID: 71698
PDB Deposition Date: 1999/7/15
Updated in MMDB: 2011/06
Experimental Method:
x-ray diffraction
Resolution: 2.4  Å
Source Organism:
Escherichia coli
Similar Structures:
Biological Unit for 1C0A: dimeric; determined by author
Molecular Components in 1C0A
Label Count Molecule
Protein (1 molecule)
Aspartyl tRNA Synthetase(Gene symbol: aspS)
Molecule annotation
Nucleotide(1 molecule)
Aspartyl tRNA
Molecule annotation
Chemicals (3 molecules)
* Click molecule labels to explore molecular sequence information.

Citing MMDB