1J2B: Crystal Structure Of Archaeosine Trna-guanine Transglycosylase Complexed With Lambda-form Trna(val)

Citation:
Abstract
Transfer RNA (tRNA) canonically has the clover-leaf secondary structure with the acceptor, D, anticodon, and T arms, which are folded into the L-shaped tertiary structure. To strengthen the L form, posttranscriptional modifications occur on nucleotides buried within the core, but the modification enzymes are paradoxically inaccessible to them in the L form. In this study, we determined the crystal structure of tRNA bound with archaeosine tRNA-guanine transglycosylase, which modifies G15 of the D arm in the core. The bound tRNA assumes an alternative conformation ("lambda form") drastically different from the L form. All of the D-arm secondary base pairs and the canonical tertiary interactions are disrupted. Furthermore, a helical structure is reorganized, while the rest of the D arm is single stranded and protruded. Consequently, the enzyme precisely locates the exposed G15 in the active site, by counting the nucleotide number from G1 to G15 in the lambda form.
PDB ID: 1J2BDownload
MMDB ID: 22925
PDB Deposition Date: 2002/12/29
Updated in MMDB: 2007/11
Experimental Method:
x-ray diffraction
Resolution: 3.3  Å
Source Organism:
Pyrococcus abyssi GE5
Similar Structures:
Biological Unit for 1J2B: tetrameric; determined by author
Molecular Components in 1J2B
Label Count Molecule
Proteins (2 molecules)
2
Archaeosine tRNA-guanine Transglycosylase(Gene symbol: PH_RS05220)
Molecule annotation
Nucleotide(1 molecule)
2
tRNA(val)
Molecule annotation
Chemicals (6 molecules)
1
4
2
2
* Click molecule labels to explore molecular sequence information.

Citing MMDB
.