PDBsum entry 2pcw

RNA

PDB id: 2pcw

Contents

DNA/RNA

PDB id:

2pcw

Name:

RNA

Title:

Solution structure of an rrna substrate bound to the pseudouridylation pocket of a box h/aca snorna

Structure:

U65 box h/aca snorna. Chain: a. Fragment: RNA hairpin containing the 5' pseudouridylation pocket. Engineered: yes. Rrna substrate of u65 box h/aca snorna. Chain: b. Fragment: rrna substrate of the 5' pseudouridylation pocket of u65 box h/aca snorna. Engineered: yes

Source:

Synthetic: yes. Other_details: synthesized by in-vitro transcription using t7 RNA polymerase from linearzed plsmid DNA. This sequence occurs naturally in humans.. Other_details: chemically synthesized. This sequence occurs naturally in humans.

NMR struc:

17 models

Authors:

H.Jin,J.P.Loria,P.B.Moore

Key ref:

H.Jin et al. (2007). Solution Structure of an rRNA Substrate Bound to the Pseudouridylation Pocket of a Box H/ACA snoRNA. Mol Cell, 26, 205-215. PubMed id: 17466623 DOI: 10.1016/j.molcel.2007.03.014

Date:

30-Mar-07 Release date: 08-May-07

DNA/RNA chains

G-G-A-C-C-C-G-C-C-A-C-U-G-C-A-G-A-G-A-U-G-C-A-A-U-C-C-A-G-U-G-G-U-C-C 35 bases

A-C-U-G-G-C-U-U-G-U-G-G-C-G 14 bases

DOI no: 10.1016/j.molcel.2007.03.014

Mol Cell 26:205-215 (2007)

PubMed id: 17466623

Solution Structure of an rRNA Substrate Bound to the Pseudouridylation Pocket of a Box H/ACA snoRNA.

H.Jin, J.P.Loria, P.B.Moore.

ABSTRACT

Base pairing between the RNA components of box H/ACA small nucleolar ribonucleoproteins (snoRNPs) and sequences in other eukaryotic RNAs target specific uridines for pseudouridylation. An RNA called HJ1 has been developed that interacts with the rRNA sequence targeted by the 5' pseudouridylation pocket of human U65 snoRNA the same way as intact U65 snoRNA. Sequences on both strands of the analog of the U65 snoRNP pseudouridylation pocket in HJ1 pair with its substrate sequence, and the resulting complex, called HJ3, is strongly stabilized by Mg(2+). The solution structure of HJ3 reveals an Omega-shaped RNA interaction motif that has not previously been described, which is likely to be common to all box H/ACA snoRNP-substrate complexes. The topology of the complex explains why the access of substrate sequences to snoRNPs is facile and how uridine selection may occur when these complexes form.

Selected figure(s)

Figure 4.
Figure 4. Solution Structure of HJ1
(A) Superposition of the ten lowest-energy structures of HJ1.
(B) Stereo view of the member of the family displayed in (A) that is closest to the mean.

Figure 6.
Figure 6. Solution Structure of HJ3
(A) Superposition of the 17 lowest-energy structures of HJ3 in front view.
(B) Superposition of the 17 lowest-energy structures of HJ3 in side view.
(C) Stereo view of the member of the family shown in (A) that is closest to the mean.
(D) Backbone conformation of HJ3 showing the Ω shape of its HJ2 (magenta) in front view.
(E) Backbone conformation of HJ3 showing the Ω shape of its HJ2 (magenta) in side view.

The above figures are reprinted by permission from Cell Press: Mol Cell (2007, 26, 205-215) copyright 2007.

Figures were selected by an automated process.