PDBsum entry 1jwc

RNA

PDB id: 1jwc

Contents

DNA/RNA

PDB id:

1jwc

Name:

RNA

Title:

Nmr solution structure of the RNA hairpin binding site for the histone stem-loop binding protein

Structure:

5'-r( Gp Gp Cp Cp Ap Ap Ap Gp Gp Cp Cp Cp Up Up Up Up Cp Ap Gp Gp Gp Cp Cp Ap Cp Cp Cp A)-3'. Chain: a. Engineered: yes. Other_details: histone mRNA 3' stem loop

Source:

Synthetic: yes. Other_details: this sequence occurs naturally at the 3' end of the replication-dependent histone mrnas of vertebrates. This sequence corresponds to the mouse h4-12 gene.

NMR struc:

1 models

Authors:

E.S.Dejong,W.F.Marzluff,E.P.Nikonowicz

Key ref:

E.S.DeJong et al. (2002). NMR structure and dynamics of the RNA-binding site for the histone mRNA stem-loop binding protein. Rna, 8, 83-96. PubMed id: 11871662

Date:

03-Sep-01 Release date: 20-Mar-02

DNA/RNA chain

G-G-C-C-C-U-U-U-U-C-A-G-G-G-C-C 16 bases

Rna 8:83-96 (2002)

PubMed id: 11871662

NMR structure and dynamics of the RNA-binding site for the histone mRNA stem-loop binding protein.

E.S.DeJong, W.F.Marzluff, E.P.Nikonowicz.

ABSTRACT

The 3' end of replication-dependent histone mRNAs terminate in a conserved sequence containing a stem-loop. This 26-nt sequence is the binding site for a protein, stem-loop binding protein (SLBP), that is involved in multiple aspects of histone mRNA metabolism and regulation. We have determined the structure of the 26-nt sequence by multidimensional NMR spectroscopy. There is a 16-nt stem-loop motif, with a conserved 6-bp stem and a 4-nt loop. The loop is closed by a conserved U.A base pair that terminates the canonical A-form stem. The pyrimidine-rich 4-nt loop, UUUC, is well organized with the three uridines stacking on the helix, and the fourth base extending across the major groove into the solvent. The flanking nucleotides at the base of the hairpin stem do not assume a unique conformation, despite the fact that the 5' flanking nucleotides are a critical component of the SLBP binding site.