Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa

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PDB ID 2db3

2db3 asymmetric unit, resolution 2.20Å
Click to display the biological molecule.
Ligands: ,
Gene: VASA (Drosophila melanogaster)
Activity: Adenosinetriphosphatase, with EC number
Resources: FirstGlance, OCA, PDBsum, RCSB, TOPSAN
Coordinates: save as pdb, mmCIF, xml

Vasa is a DEAD-box RNA helicase and the determination of the structure of the Vasa protein bound to RNA and a nonhydrolyzable ATP analog provided great insight into how this family of helicases unwinds RNA.

The crystallographic asymmetric unit of


according to figure 1 of the paper describing the structure. .

[Note: this view generates a surface area which may take half a minute to calculate.]

Motifs I and II bind the triphosphate of the ATP analog directly and through and water. A located ~3.25Å away, situated ideally for a nucleophilic in-line attack. from the negative charge of the phosphates. , specifying ATP vs. GTP.


Details of Structure Featured

The crystallographic structure containing Vasa bound to RNA, 2db3, is a 8 chains structure of sequences from Drosophila melanogaster. Full crystallographic information is available from OCA.

Reference for the structure

  • Sengoku T, Nureki O, Nakamura A, Kobayashi S, Yokoyama S. Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa. Cell. 2006 Apr 21;125(2):287-300. PMID:16630817 doi:10.1016/j.cell.2006.01.054

See Also

Content Donators

Created with the participation of Luis E Ramirez-Tapia, Wayne Decatur.

Proteopedia Page Contributors and Editors (what is this?)

Wayne Decatur, Alexander Berchansky

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