The 2.2 Å structure of a full-Length catalytically active hammerhead Ribozyme

Monika Martick and William G. Scott
Copyright, 2006

New: Solvent-Structure and Catalysis

The Sequence and the Fold:

The secondary and tertiary structure are shown with various tertiary contacts indicated in the diagram
 on the left. The color-coding of the sequence matches that of the structure.

The active site:

The cleavage-site nucleotide is now positioned for in-line attack. G-12 is positioned for general base catalysis, and G-8 may assist as a general acid. The non-bridging phosphate oxygens of the A-9 and scissile phopshate are 4.1 Å apart, and could potentially bind a divalent metal ion, although none are seen to be bound in the crystal structure.

Downloads and links:

• 
• Sequential vs. canonical numbering schemes

• High resolution figures and other supplemental stuff (including a movie).

• The official coordinates and Fobs

• The coordinates (local copy)

• The Fobs and phases (local copy)

• The Raw Diffraction Image Data (3.5 GB tarball)

• Martick and Scott: Tertiary Contacts Distant from the Active Site Prime a Ribozyme for Catalysis. Cell, 126:309-320 (2006). (Local pdf copy).

• University Press Release

• Nelson and Uhlenbeck: When to Believe What You See. Molecular Cell, 23:447-450 (2006).

• Eric Westhof: A tale in molecular recognition: the hammerhead ribozyme. J. Molecular Recognition, 20:1-3 (2006).

• Przybilski and Hammann: The Hammerhead Ribozyme Structure Brought in Line. ChemBioChem 7: 1641-1644 (2006).

• View interactively via Jmol

• A PyMOL saved session

(allows viewing the color-coded structure and the
experimental map using the free display program PyMol)